Journal of Microbiology

Full article

The key pathways and genes related to oncolytic Newcastle disease virus-induced phenotypic changes in ovarian cancer cells: Wei Song, Yuan Yuan, Fangfang Cao, Huazheng Pan, Yaqing Liu; J. Microbiol. 2025;63(4):e2411018. Published online April 29, 2025; DOI: https://doi.org/10.71150/jm.2411018

417 View
23 Download

Abstract PDF Supplementary Material: The poor prognosis and high recurrence rate of ovarian cancer highlight the urgent need to develop new therapeutic strategies. Oncolytic Newcastle disease virus (NDV) can kill cancer cells directly and regulate innate and adaptive immunity. In this study, ovarian cancer cells infected with or without velogenic NDV-BJ were subjected to a CCK-8 assay for detecting cell proliferation, flow cytometry for detecting the cell cycle and apoptosis, and wound healing and transwell assays for detecting cell migration and invasion. Transcriptomic sequencing was conducted to identify the differentially expressed genes (DEGs). GO and KEGG enrichment analyses were performed to explore the mechanism underlying the oncolytic effect of NDV on ovarian cancer cells. The results showed that infection with NDV inhibited ovarian cancer cell proliferation, migration, and invasion; disrupted the cell cycle; and promoted apoptosis. Compared with those in negative control cells, the numbers of upregulated and downregulated genes in ovarian cancer cells infected with NDV were 1,499 and 2,260, respectively. Thirteen KEGG pathways related to cell growth and death, cell mobility, and signal transduction were significantly enriched. Among these pathways, 48 DEGs, especially SESN2, HLA B/C/E, GADD45B, and RELA, that may be involved in the oncolytic process were screened, and qPCR analysis verified the reliability of the transcription data. This study discovered some key pathways and genes related to oncolytic NDV-induced phenotypic changes in ovarian cancer cells, which will guide our future research directions and help further explore the specific mechanisms by which infection with NDV suppresses ovarian cancer development.

Journal Articles

CalR Inhibits the Swimming Motility and Polar Flagellar Gene Expression in Vibrio parahaemolyticus: Jingyang Chang, Yining Zhou, Miaomiao Zhang, Xue Li, Nan Zhang, Xi Luo, Bin Ni, Haisheng Wu, Renfei Lu, Yiquan Zhang; J. Microbiol. 2024;62(12):1125-1132. Published online December 6, 2024; DOI: https://doi.org/10.1007/s12275-024-00179-0

63 View
0 Download
1 Web of Science

Abstract: Vibrio parahaemolyticus has two flagellar systems, the polar flagellum and lateral flagella, which are both intricately regulated by a multitude of factors. CalR, a LysR-type transcriptional regulator, is sensitive to calcium (Ca) and plays a crucial role in regulating the virulence and swarming motility of V. parahaemolyticus. In this study, we have demonstrated that the deletion of calR significantly enhances the swimming motility of V. parahaemolyticus under low Ca conditions but not under high Ca conditions or in the absence of Ca. CalR binds to the regulatory DNA regions of flgM, flgA, and flgB, which are located within the polar flagellar gene loci, with the purpose of repressing their transcription. Additionally, it exerts an indirect negative control over the transcription of flgK. The overexpression of CalR in Escherichia coli resulted in a reduction in the expression levels of flgM, flgA, and flgB, while having no impact on the expression of flgK. In summary, this research demonstrates that the negative regulation of V. parahaemolyticus swimming motility by CalR under low Ca conditions is achieved through its regulation on the transcription of polar flagellar genes.

Eradication of drug-resistant Acinetobacter baumannii by cell-penetrating peptide fused endolysin: Jeonghyun Lim , Jaeyeon Jang , Heejoon Myung , Miryoung Song; J. Microbiol. 2022;60(8):859-866. Published online May 25, 2022; DOI: https://doi.org/10.1007/s12275-022-2107-y

89 View
0 Download
10 Web of Science
11 Crossref

Abstract

Antimicrobial agents targeting peptidoglycan have shown successful results in eliminating bacteria with high selective toxicity. Bacteriophage encoded endolysin as an alternative antibiotics is a peptidoglycan degrading enzyme with a low rate of resistance. Here, the engineered endolysin was developed to defeat multiple drug-resistant (MDR) Acinetobacter baumannii. First, putative endolysin PA90 was predicted by genome analysis of isolated Pseudomonas phage PBPA. The His-tagged PA90 was purified from BL21(DE3) pLysS and tested for the enzymatic activity using Gram-negative pathogens known for having a high antibiotic resistance rate including A. baumannii. Since the measured activity of PA90 was low, probably due to the outer membrane, cell-penetrating peptide (CPP) DS4.3 was introduced at the N-terminus of PA90 to aid access to its substrate. This engineered endolysin, DS-PA90, completely killed A. baumannii at 0.25 μM, at which concentration PA90 could only eliminate less than one log in CFU/ml. Additionally, DS-PA90 has tolerance to NaCl, where the ~50% of activity could be maintained in the presence of 150 mM NaCl, and stable activity was also observed with changes in pH or temperature. Even MDR A. baumannii strains were highly susceptible to DS-PA90 treatment: five out of nine strains were entirely killed and four strains were reduced by 3–4 log in CFU/ml. Consequently, DS-PA90 could protect waxworm from A. baumannii-induced death by ~70% for ATCC 17978 or ~44% for MDR strain 1656-2 infection. Collectively, our data suggest that CPP-fused endolysin can be an effective antibacterial agent against Gramnegative pathogens regardless of antibiotics resistance mechanisms.

Citations

Citations to this article as recorded by

Bactericidal Effect of a Novel Phage Endolysin Targeting Multi-Drug-Resistant Acinetobacter baumannii
Sara Garcia Torres, Dirk Henrich, Rene D. Verboket, Ingo Marzi, Gernot Hahne, Volkhard A. J. Kempf, Stephan Göttig
Antibiotics.2025; 14(2): 162. CrossRef
In vitro and in vivo efficacy studies of an engineered endolysin targeting Gram-negative pathogens
Hye-Won Hong, Jaeyeon Jang, Young Deuk Kim, Tae-Hwan Jeong, Dogeun Lee, Kyungah Park, Min Soo Kim, In-Soo Yoon, Miryoung Song, Min-Duk Seo, Hyunjin Yoon, Daejin Lim, Heejoon Myung
International Journal of Biological Macromolecules.2025; 302: 140463. CrossRef
Antimicrobial peptide thanatin fused endolysin PA90 (Tha-PA90) for the control of Acinetobacter baumannii infection in mouse model
Jeonghyun Lim, Heejoon Myung, Daejin Lim, Miryoung Song
Journal of Biomedical Science.2024;[Epub] CrossRef
Tissue damage alleviation and mucin inhibition by P5 in a respiratory infection mouse model with multidrug-resistant Acinetobacter baumannii
Jun Hee Oh, Jonggwan Park, Hee Kyoung Kang, Hee Joo Park, Yoonkyung Park
Biomedicine & Pharmacotherapy.2024; 181: 117724. CrossRef
Potential of antimicrobial peptide-fused endolysin LysC02 as therapeutics for infections and disinfectants for food contact surfaces to control Cronobacter sakazakii
Doyeon Kim, Jinwoo Kim, Minsik Kim
Food Control.2024; 157: 110190. CrossRef
Gram-negative endolysins: overcoming the outer membrane obstacle
Hazel M Sisson, Simon A Jackson, Robert D Fagerlund, Suzanne L Warring, Peter C Fineran
Current Opinion in Microbiology.2024; 78: 102433. CrossRef
LysJEP8: A promising novel endolysin for combating multidrug‐resistant Gram‐negative bacteria
Jose Vicente Carratalá, Neus Ferrer‐Miralles, Elena Garcia‐Fruitós, Anna Arís
Microbial Biotechnology.2024;[Epub] CrossRef
You get what you test for: The killing effect of phage lysins is highly dependent on buffer tonicity and ionic strength
Roberto Vázquez, Diana Gutiérrez, Zoë Dezutter, Bjorn Criel, Philippe de Groote, Yves Briers
Microbial Biotechnology.2024;[Epub] CrossRef
Endolysins: a new antimicrobial agent against antimicrobial resistance. Strategies and opportunities in overcoming the challenges of endolysins against Gram-negative bacteria
Fazal Mehmood Khan, Fazal Rasheed, Yunlan Yang, Bin Liu, Rui Zhang
Frontiers in Pharmacology.2024;[Epub] CrossRef
Characterization of Three Different Endolysins Effective against Gram-Negative Bacteria
Tae-Hwan Jeong, Hye-Won Hong, Min Soo Kim, Miryoung Song, Heejoon Myung
Viruses.2023; 15(3): 679. CrossRef
Design strategies for positively charged endolysins: Insights into Artilysin development
Jose Vicente Carratalá, Anna Arís, Elena Garcia-Fruitós, Neus Ferrer-Miralles
Biotechnology Advances.2023; 69: 108250. CrossRef

Application of fast expectation-maximization microbial source tracking to discern fecal contamination in rivers exposed to low fecal inputs: Youfen Xu , Ganghua Han , Hongxun Zhang , Zhisheng Yu , Ruyin Liu; J. Microbiol. 2022;60(6):594-601. Published online April 18, 2022; DOI: https://doi.org/10.1007/s12275-022-1651-9

82 View
0 Download
6 Web of Science
5 Crossref

Abstract

Community-based microbial source tracking (MST) can be used to determine fecal contamination from multiple sources in the aquatic environment. However, there is little scientific information on its application potential in water environmental management. Here, we compared SourceTracker and Fast Expectation-maximization Microbial Source Tracking (FEAST) performances on environmental water bodies exposed to low fecal pollution and evaluated treatment effects of fecal pollution in the watershed utilizing community-based MST. Our results showed that FEAST overall outperformed SourceTracker in sensitivity and stability, and was able to discern multi-source fecal contamination (mainly chicken feces) in ambient water bodies exposed to low fecal inputs. Consistent with our previous PCR/qPCR-based MST assays, FEAST analysis indicates that fecal pollution has been significantly mitigated through comprehensive environmental treatment by the local government. This study suggests that FEAST can be a powerful tool for accurately evaluating the contribution of multi-source fecal contamination in environmental water, facilitating environmental management.

Citations

Citations to this article as recorded by

Faecal source apportionment using molecular methods: A proof of concept using the FEAST algorithm
Laura T. Kelly, Jack Sissons, Lucy Thompson, John K. Pearman
Water Research.2024; 266: 122365. CrossRef
Novel Microbial Engraftment Trajectories Following Microbiota Transplant Therapy in Ulcerative Colitis
Daphne Moutsoglou, Aneesh Syal, Sharon Lopez, Elizabeth C Nelson, Lulu Chen, Amanda J Kabage, Monika Fischer, Alexander Khoruts, Byron P Vaughn, Christopher Staley
Journal of Crohn's and Colitis.2024;[Epub] CrossRef
Computational methods and challenges in analyzing intratumoral microbiome data
Qi Wang, Zhaoqian Liu, Anjun Ma, Zihai Li, Bingqiang Liu, Qin Ma
Trends in Microbiology.2023; 31(7): 707. CrossRef
Response and recovery mechanisms of river microorganisms to gradient concentrations of estrogen
Dan Qin, Yan Li, Nengwang Chen, Anyi Hu, Chang-Ping Yu
Frontiers in Microbiology.2023;[Epub] CrossRef
Improving the Identification of Fecal Contamination in Recreational Water through the Standardization and Normalization of Microbial Source Tracking
Megan N. Jamison, John J. Hart, David C. Szlag
ACS ES&T Water.2022; 2(12): 2305. CrossRef

Vibrio parahaemolyticus cqsA controls production of quorum sensing signal molecule 3-hydroxyundecan-4-one and regulatessensing signal molecule 3-hydroxyundecan-4-one and regulates colony morphology: Kui Wu , Yangyun Zheng , Qingping Wu , Haiying Chen , Songzhe Fu , Biao Kan , Yongyan Long , Xiansheng Ni , Junling Tu; J. Microbiol. 2019;57(12):1105-1114. Published online November 4, 2019; DOI: https://doi.org/10.1007/s12275-019-9379-x

71 View
0 Download
12 Web of Science
11 Crossref

Abstract

In order to adapt to different environments, Vibrio parahaemolyticus employed a complicated quorum sensing system to orchestrate gene expression and diverse colony morphology patterns. In this study, the function of the putative quorum sensing signal synthase gene cqsA (VPA0711 in V. parahaemolyticus strain RIMD2210633 genome) was investigated. The cloning and expression of V. parahaemolyticus cqsA in Escherichia coli system induced the production of a new quorum sensing signal that was found in its culture supernatant. The signal was purified by high performance liquid chromatography
methods
and determined to be 3-hydroxyundecan- 4-one by indirect and direct mass spectra assays. The deletion of cqsA in RIMD2210633 changed V. parahaemolyticus colony morphology from the classical ‘fried-egg’ shape (thick and opaque in the center, while thin and translucent in the edge) of the wild-type colony to a ‘pancake’ shape (no significant difference between the centre and the edge) of the cqsAdeleted colony. This morphological change could be restored by complementary experiment with cqsA gene or the signal extract. In addition, the expression of opaR, a well-known quorum sensing regulatory gene, could be up-regulated by cqsA deletion. Our results suggested that V. parahaemolyticus used cqsA to produce 3-hydroxyundecan-4-one signal and thereby regulated colony morphology and other quorum sensing-associated behaviors.

Citations

Citations to this article as recorded by

Antimicrobial resistance, virulence factors and phylogenetic profiles of Vibrio parahaemolyticus in the eastern coast of Shenzhen
Xian Qiang Lian, Guo Dong Liu, Miao Fen Huang, Qiu Hua Fan, Zi Dan Lin
Frontiers in Microbiology.2024;[Epub] CrossRef
Quorum sensing signal synthases enhance Vibrio parahaemolyticus swarming motility
Fuwen Liu, Fei Wang, Yixuan Yuan, Xiaoran Li, Xiaojun Zhong, Menghua Yang
Molecular Microbiology.2023; 120(2): 241. CrossRef
Regulation of Virulence Factors Expression During the Intestinal Colonization of Vibrio parahaemolyticus
Jingyu Wang, Yuming Zhan, Han Sun, Xiaodan Fu, Qing Kong, Changliang Zhu, Haijin Mou
Foodborne Pathogens and Disease.2022; 19(3): 169. CrossRef
Supplementation of ex situ produced bioflocs improves immune response against AHPND in Pacific whiteleg shrimp (Litopenaeus vannamei) postlarvae
Magdalena Lenny Situmorang, Umaporn Uawisetwathana, Sopacha Arayamethakorn, Nitsara Karoonuthaisiri, Wanilada Rungrassamee, Haniswita Haniswita, Peter Bossier, Gede Suantika
Applied Microbiology and Biotechnology.2022; 106(9-10): 3751. CrossRef
A novel finding of intra-genus inhibition of quorum sensing in Vibrio bacteria
Huong Thanh Hoang, Thuy Thu Thi Nguyen, Ha Minh Do, Thao Kim Nu Nguyen, Hai The Pham
Scientific Reports.2022;[Epub] CrossRef
CqsA-introduced quorum sensing inhibits type VI secretion system 2 through an OpaR-dependent pathway in Vibrio parahaemolyticus
Kui Wu, Yongyan Long, Qian Liu, Wei Wang, Guoyin Fan, Hui Long, Yangyun Zheng, Xiansheng Ni, Shengen Chen, Haiying Chen, Shufen Shuai
Microbial Pathogenesis.2022; 162: 105334. CrossRef
CqsA inhibits the virulence of Vibrio harveyi to the pearl gentian grouper (♀Epinephelus fuscoguttatus × ♂Epinephelus lanceolatus)
Yaqiu Zhang, Yiqin Deng, Juan Feng, Zhixun Guo, Can Mao, Haoxiang Chen, Ziyang Lin, Jianmei Hu, Youlu Su
Aquaculture.2021; 535: 736346. CrossRef
Identification of LuxR Family Regulators That Integrate Into Quorum Sensing Circuit in Vibrio parahaemolyticus
Xiaojun Zhong, Ranran Lu, Fuwen Liu, Jinjie Ye, Junyang Zhao, Fei Wang, Menghua Yang
Frontiers in Microbiology.2021;[Epub] CrossRef
Adaptations of Vibrio parahaemolyticus to Stress During Environmental Survival, Host Colonization, and Infection
Gururaja Perumal Pazhani, Goutam Chowdhury, Thandavarayan Ramamurthy
Frontiers in Microbiology.2021;[Epub] CrossRef
Vibrio alginolyticus influences quorum sensing-controlled phenotypes of acute hepatopancreatic necrosis disease-causing Vibrio parahaemolyticus
Panida Paopradit, Natta Tansila, Komwit Surachat, Pimonsri Mittraparp-arthorn
PeerJ.2021; 9: e11567. CrossRef
Dynamics and Microevolution of Vibrio parahaemolyticus Populations in Shellfish Farms
Songzhe Fu, Qingyao Wang, Yixiang Zhang, Qian Yang, Jingwei Hao, Ying Liu, Bo Pang, Michael S. Rappe
mSystems.2021;[Epub] CrossRef

Partial characteristics of hemolytic factors secreted from airborne Aspergillus and Penicillium, and an enhancement of hemolysis by Aspergillus micronesiensis CAMP-like factor via Staphylococcus aureus-sphingomyelinase: Sumonrat Kaveemongkonrat , Kwanjit Duangsonk , Jos Houbraken , Phimchat Suwannaphong , Nongnuch Vanittanakom Vanittanakom , Malee Mekaprateep; J. Microbiol. 2019;57(12):1086-1094. Published online November 4, 2019; DOI: https://doi.org/10.1007/s12275-019-9133-4

67 View
0 Download
3 Web of Science
2 Crossref

Abstract

One of the advantages for initial survival of inhaled fungal spores in the respiratory tract is the ability for iron acquisition via hemolytic factor-production. To examine the ability of indoor Aspergillus and Penicillium affecting hemolysis, the secreted factors during the growth of thirteen strains from eight species were characterized in vitro for their hemolytic activity (HA) and CAMP-like reaction. The hemolytic index of HA on human blood agar of Aspergillus micronesiensis, Aspergillus wentii, Aspergillus westerdijkiae, Penicillium citrinum, Penicillium copticola, Penicillium paxilli, Penicillium steckii, and Penicillium sumatrense were 1.72 ± 0.34, 1.61 ± 0.41, 1.69 ± 0.16, 1.58 ± 0.46, 3.10 ± 0.51, 1.22 ± 0.19, 2.55 ± 0.22, and 1.90 ± 0.14, respectively. The secreted factors of an Aspergillus wentii showed high HA when grown in undernourished broth at 25°C at an exponential phase and were heat sensitive. Its secreted proteins have an estimated relative molecular weight over 50 kDa. Whereas, the factors of Penicillium steckii were secreted in a similar condition at a late exponential phase but showed low HA and heat tolerance. In a CAMP-like test with sheep blood, the synergistic hemolytic reactions between most tested mold strains and Staphylococcus aureus were identified. Moreover, the enhancement of α-hemolysis of Staphylococcus aureus could occur through the interaction of Staphylococcus aureus-sphingomyelinase and CAMP-like factors secreted from Aspergillus micronesiensis. Further studies on the characterization of purified hemolytic- and CAMP-like-factors secreted from Aspergillus wentii and Aspergillus micronesiensis may lead to more understanding of their involvement of hemolysis

Citations

Citations to this article as recorded by

Green Synthesis of Endolichenic Fungi Functionalized Silver Nanoparticles: The Role in Antimicrobial, Anti-Cancer, and Mosquitocidal Activities
Yugal Kishore Mohanta, Debasis Nayak, Awdhesh Kumar Mishra, Ishani Chakrabartty, Manjit Kumar Ray, Tapan Kumar Mohanta, Kumananda Tayung, Rajapandian Rajaganesh, Murugan Vasanthakumaran, Saravanan Muthupandian, Kadarkarai Murugan, Gouridutta Sharma, Hans-
International Journal of Molecular Sciences.2022; 23(18): 10626. CrossRef
Group B Streptococcus CAMP Factor Does Not Contribute to Interactions with the Vaginal Epithelium and Is Dispensable for Vaginal Colonization in Mice
Mallory B. Ballard, Vicki Mercado-Evans, Madelynn G. Marunde, Hephzibah Nwanosike, Jacob Zulk, Kathryn A. Patras, Mariola J. Edelmann
Microbiology Spectrum.2021;[Epub] CrossRef

Identification and characterization of a marine-derived chitinolytic fungus, Acremonium sp. YS2-2: Dawoon Chung , Kyunghwa Baek , Seung Seob Bae , Jaejoon Jung; J. Microbiol. 2019;57(5):372-380. Published online February 26, 2019; DOI: https://doi.org/10.1007/s12275-019-8469-0

77 View
0 Download
22 Web of Science
20 Crossref

Abstract

Chitin is the most abundant biopolymer in marine environments. To facilitate its utilization, our laboratory screened marine-derived fungal strains for chitinolytic activity. One chitinolytic strain isolated from seawater, designated YS2-2, was identified as Acremonium species based on morphological and phylogenetic analyses. Acremonium species are cosmopolitan fungi commonly isolated from both terrestrial and marine environments, but their chitinolytic activity is largely unknown. The extracellular crude enzyme of YS2-2 exhibited optimum chitinolytic activity at pH 6.0–7.6, 23–45°C, and 1.5% (w/v) NaCl. Degenerate PCR revealed the partial cDNA sequence of a putative chitinase gene, chiA, in YS2-2. The expression of chiA was dramatically induced in response to 1% (w/v) colloidal chitin compared to levels under starvation, chitin powder, and glucose conditions. Moreover, the chiA transcript levels were positively correlated with chitinolytic activities under various colloidal chitin concentrations, suggesting that ChiA mediates chitinolytic activity in this strain. Our results provide a basis for additional studies of marinederived chitinolytic fungi aimed at improving industrial applications.

Citations

Citations to this article as recorded by

Isolation and Characterization of a Nitrilase-Producing Geotrichum Strain and Optimization of the Fermentation Conditions
Huaiyuan Zhang, Meijun Tao, Yiwen Fan, Jiazi Zhang, Juan Zhang, Zhibin Feng
Current Microbiology.2025;[Epub] CrossRef
Performance of aerobic denitrifying fungal community for promoting nitrogen reduction and its application in drinking water reservoirs
Tao Liu, Ziying Zhao, Haiyun Li, Mukesh Kumar Awasthi, Dmitry B. Kosolapov, Tongchao Ni, Ben Ma, Xiaoyan Liu, Xiang Liu, Wei Zhi, Haihan Zhang
Journal of Environmental Management.2024; 351: 119842. CrossRef
Pannorin isolated from marine Penicillium sp. SG-W3: a selective monoamine oxidase A inhibitor
Jong Min Oh, Qian Gao, Woong-Hee Shin, Eun-Young Lee, Dawoon Chung, Grace Choi, Sang-Jip Nam, Hoon Kim
Applied Biological Chemistry.2024;[Epub] CrossRef
The potential of degrading natural chitinous wastes to oligosaccharides by chitinolytic enzymes from two Talaromyces sp. isolated from rotten insects (Hermetia illucens) under solid state fermentation
Xunfan Wei, Zhuoxiao Sui, Mengyuan Guo, Sicong Chen, Zongqi Zhang, Jin Geng, Jinhua Xiao, Dawei Huang
Brazilian Journal of Microbiology.2023; 54(1): 223. CrossRef
Microbial chitinases and their relevance in various industries
Deepali Thakur, Anjali Chauhan, Prakriti Jhilta, Rajesh Kaushal, Bhawna Dipta
Folia Microbiologica.2023; 68(1): 29. CrossRef
An overview of fungal chitinases and their potential applications
Deepali Thakur, Aarti Bairwa, Bhawna Dipta, Prakriti Jhilta, Anjali Chauhan
Protoplasma.2023; 260(4): 1031. CrossRef
Characterization and Biological Activities of Yeasts Isolated from Marine Environments
Woon-Jong Yu, Dawoon Chung, Seung Seob Bae, Yong Min Kwon, Eun-Seo Cho, Grace Choi
Microbiology Research.2023; 14(4): 1984. CrossRef
Ecological insights and potential application of marine filamentous fungi in environmental restoration
Abhaya Dayini Behera, Surajit Das
Reviews in Environmental Science and Bio/Technology.2023; 22(2): 281. CrossRef
Identification and Characterization of Three Chitinases with Potential in Direct Conversion of Crystalline Chitin into N,N′-diacetylchitobiose
Xue-Bing Ren, Yan-Ru Dang, Sha-Sha Liu, Ke-Xuan Huang, Qi-Long Qin, Xiu-Lan Chen, Yu-Zhong Zhang, Yan-Jun Wang, Ping-Yi Li
Marine Drugs.2022; 20(3): 165. CrossRef
Biochemical purification and characterization of a truncated acidic, thermostable chitinase from marine fungus for N-acetylglucosamine production
Bin He, Liyan Yang, Dengfeng Yang, Minguo Jiang, Chengjin Ling, Hailan Chen, Feng Ji, Lixia Pan
Frontiers in Bioengineering and Biotechnology.2022;[Epub] CrossRef
Efficient production of GlcNAc in an aqueous-organic system with a Chitinolyticbacter meiyuanensis SYBC-H1 mutant
Zhi-kui Hao, Jian-song Li, Dan-hua Wang, Fei He, Jing-shi Xue, Liang-hong Yin, Hua-bao Zheng
Biotechnology Letters.2022; 44(4): 623. CrossRef
Polyextremophilic Chitinolytic Activity by a Marine Strain (IG119) of Clonostachys rosea
Marcella Pasqualetti, Susanna Gorrasi, Valeria Giovannini, Martina Braconcini, Massimiliano Fenice
Molecules.2022; 27(3): 688. CrossRef
Characterization of Chitinolytic and Antifungal Activities in Marine-Derived Trichoderma bissettii Strains
Dawoon Chung, Yong Min Kwon, Ji Yeon Lim, Seung Sub Bae, Grace Choi, Dae-Sung Lee
Mycobiology.2022; 50(4): 244. CrossRef
A Broad-Specificity Chitinase from Penicillium oxalicum k10 Exhibits Antifungal Activity and Biodegradation Properties of Chitin
Xing-Huan Xie, Xin Fu, Xing-Yu Yan, Wen-Fang Peng, Li-Xin Kang
Marine Drugs.2021; 19(7): 356. CrossRef
Marine-Derived Fungi in Korea
Yong Min Kwon, Seung Sub Bae, Grace Choi, Ji Yeon Lim, Yoon-Hee Jung, Dawoon Chung
Ocean Science Journal.2021; 56(1): 1. CrossRef
Telomere-to-telomere genome assembly of asparaginase-producing Trichoderma simmonsii
Dawoon Chung, Yong Min Kwon, Youngik Yang
BMC Genomics.2021;[Epub] CrossRef
Soil biochemical properties and microbial composition in aged and non‐aged apple (Malus domestica) orchards in Luochuan County, Loess Plateau, China
Jia Tian, Chao Sun, Pengpeng Lu, Fei Li, Yiqing Shangguan, Fan Qi
Soil Use and Management.2021; 37(4): 879. CrossRef
Highlighting the Crude Oil Bioremediation Potential of Marine Fungi Isolated from the Port of Oran (Algeria)
Ahlem Maamar, Marie-Elisabeth Lucchesi, Stella Debaets, Nicolas Nguyen van Long, Maxence Quemener, Emmanuel Coton, Mohammed Bouderbala, Gaëtan Burgaud, Amaria Matallah-Boutiba
Diversity.2020; 12(5): 196. CrossRef
Characterization of Amylolytic Activity by a Marine-Derived Yeast Sporidiobolus pararoseus PH-Gra1
Yong Min Kwon, Hyun Seok Choi, Ji Yeon Lim, Hyeong Seok Jang, Dawoon Chung
Mycobiology.2020; 48(3): 195. CrossRef
High Production of Chitinolytic Activity in Halophilic Conditions by a New Marine Strain of Clonostachys rosea
Marcella Pasqualetti, Paolo Barghini, Valeria Giovannini, Massimiliano Fenice
Molecules.2019; 24(10): 1880. CrossRef

Lytic KFS-SE2 phage as a novel bio-receptor for Salmonella Enteritidis detection: In Young Choi , Cheonghoon Lee , Won Keun Song , Sung Jae Jang , Mi-Kyung Park; J. Microbiol. 2019;57(2):170-179. Published online January 31, 2019; DOI: https://doi.org/10.1007/s12275-019-8610-0

65 View
0 Download
13 Web of Science
13 Crossref

Abstract

Since Salmonella Enteritidis is one of the major foodborne pathogens, on-site applicable rapid detection methods have been required for its control. The purpose of this study was to isolate and purify S. Enteritidis-specific phage (KFS-SE2 phage) from an eel farm and to investigate its feasibility as a novel, efficient, and reliable bio-receptor for its employment. KFS-SE2 phage was successfully isolated at a high concentration of (2.31 ± 0.43) × 1011 PFU/ml, and consisted of an icosahedral head of 65.44 ± 10.08 nm with a non-contractile tail of 135.21 ± 12.41 nm. The morphological and phylogenetic analysis confirmed that it belongs to the Pis4avirus genus in the family of Siphoviridae. KFS-SE2 genome consisted of 48,608 bp with 45.7% of GC content. Genome analysis represented KFS-SE2 to have distinctive characteristics as a novel phage. Comparative analysis of KFS-SE2 phage with closely related strains confirmed its novelty by the presence of unique proteins. KFS-SE2 phage exhibited excellent specificity to S. Enteritidis and was stable under the temperature range of 4 to 50°C and pH of 3 to 11 (P < 0.05). The latent time was determined to be 20 min. Overall, a new lytic KFS-SE2 phage was successfully isolated from the environment at a high concentration and the excellent feasibility of KFS-SE2 phage was demonstrated as a new bio-receptor for S. Enteritidis detection.

Citations

Citations to this article as recorded by

Phage vB_KlebPS_265 Active Against Resistant/MDR and Hypermucoid K2 Strains of Klebsiella pneumoniae
Vyacheslav I. Yakubovskij, Vera V. Morozova, Yuliya N. Kozlova, Artem Yu. Tikunov, Valeria A. Fedorets, Elena V. Zhirakovskaya, Igor V. Babkin, Alevtina V. Bardasheva, Nina V. Tikunova
Viruses.2025; 17(1): 83. CrossRef
Lytic Spectra of Tailed Bacteriophages: A Systematic Review and Meta-Analysis
Ivan M. Pchelin, Andrei V. Smolensky, Daniil V. Azarov, Artemiy E. Goncharov
Viruses.2024; 16(12): 1879. CrossRef
User-friendly, signal-enhanced planar spiral coil-based magnetoelastic biosensor combined with humidity-resistant phages for simultaneous detection of Salmonella Typhimurium and Escherichia coli O157:H7 on fresh produce
In Young Choi, Jaein Choe, Bryan A. Chin, Mi-Kyung Park
Sensors and Actuators B: Chemical.2023; 393: 134179. CrossRef
Performance of wild, tailed, humidity-robust phage on a surface-scanning magnetoelastic biosensor for Salmonella Typhimurium detection
Hwa-Eun Lee, Yu-Bin Jeon, Bryan A. Chin, Sang Hyuk Lee, Hye Jin Lee, Mi-Kyung Park
Food Chemistry.2023; 409: 135239. CrossRef
Advances in detection methods for viable Salmonella spp.: current applications and challenges
Linlin Zhuang, Jiansen Gong, Qiuping Shen, Jianbo Yang, Chunlei Song, Qingxin Liu, Bin Zhao, Yu Zhang, Mengling Zhu
Analytical Sciences.2023; 39(10): 1643. CrossRef
Prevalence of Indigenous Antibiotic-Resistant Salmonella Isolates and Their Application to Explore a Lytic Phage vB_SalS_KFSSM with an Intra-Broad Specificity
Jaein Choe, Su-Hyeon Kim, Ji Min Han, Jong-Hoon Kim, Mi-Sun Kwak, Do-Won Jeong, Mi-Kyung Park
Journal of Microbiology.2023; 61(12): 1063. CrossRef
Breathing‐Driven Self‐Powered Pyroelectric ZnO Integrated Face Mask for Bioprotection
Moon‐Ju Kim, Zhiquan Song, Chang Kyu Lee, Tae Gyeong Yun, Joo‐Yoon Noh, Mi‐Kyung Park, Dongeun Yong, Min‐Jung Kang, Jae‐Chul Pyun
Small.2023;[Epub] CrossRef
Phage-targeting bimetallic nanoplasmonic biochip functionalized with bacterial outer membranes as a biorecognition element
Moon-Ju Kim, Hyung Eun Bae, Soonil Kwon, Mi-Kyung Park, Dongeun Yong, Min-Jung Kang, Jae-Chul Pyun
Biosensors and Bioelectronics.2023; 238: 115598. CrossRef
Salmonella phage akira, infecting selected Salmonella enterica Enteritidis and Typhimurium strains, represents a new lineage of bacteriophages
Nikoline S. Olsen, René Lametsch, Natalia Wagner, Lars Hestbjerg Hansen, Witold Kot
Archives of Virology.2022; 167(10): 2049. CrossRef
Bacteriophage-Based Biosensors: A Platform for Detection of Foodborne Bacterial Pathogens from Food and Environment
Rashad R. Al-Hindi, Addisu D. Teklemariam, Mona G. Alharbi, Ibrahim Alotibi, Sheren A. Azhari, Ishtiaq Qadri, Turki Alamri, Steve Harakeh, Bruce M. Applegate, Arun K. Bhunia
Biosensors.2022; 12(10): 905. CrossRef
Characterization of a New and Efficient Polyvalent Phage Infecting E. coli O157:H7, Salmonella spp., and Shigella sonnei
Su-Hyeon Kim, Damilare Emmanuel Adeyemi, Mi-Kyung Park
Microorganisms.2021; 9(10): 2105. CrossRef
Improvement of a new selective enrichment broth for culturing Salmonella in ready‐to‐eat fruits and vegetables
Jiajia Wan, Zhaoxin Lu, Xiaomei Bie, Fengxia Lv, Haizhen Zhao
Journal of Food Safety.2020;[Epub] CrossRef
Exploring the feasibility of Salmonella Typhimurium-specific phage as a novel bio-receptor
In Young Choi, Do Hyeon Park, Brayan A. Chin, Cheonghoon Lee, Jinyoung Lee, Mi-Kyung Park
Journal of Animal Science and Technology.2020; 62(5): 668. CrossRef

Review

[MINIREVIEW] Progress of analytical tools and techniques for human gut microbiome research: Eun-Ji Song , Eun-Sook Lee , Young-Do Nam; J. Microbiol. 2018;56(10):693-705. Published online September 28, 2018; DOI: https://doi.org/10.1007/s12275-018-8238-5

71 View
0 Download
46 Crossref

Abstract

Massive DNA sequencing studies have expanded our insights and understanding of the ecological and functional characteristics of the gut microbiome. Advanced sequencing technologies allow us to understand the close association of the gut microbiome with human health and critical illnesses. In the future, analyses of the gut microbiome will provide key information associating with human individual health, which will help provide personalized health care for diseases. Numerous molecular biological analysis tools have been rapidly developed and employed for the gut microbiome researches; however, methodological differences among researchers lead to inconsistent data, limiting extensive share of data. It is therefore very essential to standardize the current
method
ologies and establish appropriate pipelines for human gut microbiome research. Herein, we review the methods and procedures currently available for studying the human gut microbiome, including fecal sample collection, metagenomic DNA extraction, massive DNA sequencing, and data analyses with bioinformatics. We believe that this review will contribute to the progress of gut microbiome research in the clinical and practical aspects of human health.

Citations

Citations to this article as recorded by

Efficacy of a Postbiotic Formulation Combined With Microneedling for Mild‐to‐Moderate Acne: A Self‐Control Study
Zhanhong Li, Peihui Li, Yu Xu, Changqing Yan, Xiufen Ma, Huiying Wang, Hong Cheng, Jing Zeng, Ting Li, Xinxian Li, Jia Zhou, Jie Zhang, Jianfeng Zhou, Rongya Yang, Yan Wu, Li Li, Wei Lai, Jiangyun Zhao, Zhe Liu, Qiong Meng
Journal of Cosmetic Dermatology.2025;[Epub] CrossRef
Comparative analysis of three experimental methods for revealing human fecal microbial diversity
Caiqing Yao, Yu Zhang, Lijun You, Jingjing E, Junguo Wang
BMC Microbiology.2025;[Epub] CrossRef
Changes in the Gastrointestinal Microbiota Induced by Proton Pump Inhibitors—A Review of Findings from Experimental Trials
Reidar Fossmark, Maya Olaisen
Microorganisms.2024; 12(6): 1110. CrossRef
Deciphering the gut microbiome: The revolution of artificial intelligence in microbiota analysis and intervention
Mohammad Abavisani, Alireza Khoshrou, Sobhan Karbas Foroushan, Negar Ebadpour, Amirhossein Sahebkar
Current Research in Biotechnology.2024; 7: 100211. CrossRef
From the Gut to the Brain: Is Microbiota a New Paradigm in Parkinson’s Disease Treatment?
Cristiana Vilela, Bruna Araújo, Carla Soares-Guedes, Rita Caridade-Silva, Joana Martins-Macedo, Catarina Teixeira, Eduardo D. Gomes, Cristina Prudêncio, Mónica Vieira, Fábio G. Teixeira
Cells.2024; 13(9): 770. CrossRef
Gut Microbiome in Alzheimer’s Disease: from Mice to Humans
Chang Liang, Resel Pereira, Yan Zhang, Olga L. Rojas
Current Neuropharmacology.2024; 22(14): 2314. CrossRef
Comparative Analysis of Healthy Gut Microbiota in German and Korean Populations: Insights from Large-Scale Cohort Studies
Min Kee Son, Yuri Song, Jin Chung, Hee Sam Na
Microbiology Research.2023; 15(1): 109. CrossRef
Changes in the microbiota of the upper airways and intestine in the treatment of acute respiratory infections in preschool children
Tatiana I. Kurdyukova, Olga N. Krasnorutskaya, Daniil Yu. Bugrimov, Artem N. Shevtsov
Russian Pediatric Journal.2023; 23(2): 95. CrossRef
Factors Affecting Gut Microbiota of Puppies from Birth to Weaning
Fatemeh Balouei, Bruno Stefanon, Sandy Sgorlon, Misa Sandri
Animals.2023; 13(4): 578. CrossRef
Culturing the Human Oral Microbiota, Updating Methodologies and Cultivation Techniques
Saber Khelaifia, Pilliol Virginie, Souad Belkacemi, Herve Tassery, Elodie Terrer, Gérard Aboudharam
Microorganisms.2023; 11(4): 836. CrossRef
Influence of Microbiota on Vaccine Effectiveness: “Is the Microbiota the Key to Vaccine-induced Responses?”
So-Hee Hong
Journal of Microbiology.2023; 61(5): 483. CrossRef
gutMDisorder v2.0: a comprehensive database for dysbiosis of gut microbiota in phenotypes and interventions
Changlu Qi, Yiting Cai, Kai Qian, Xuefeng Li, Jialiang Ren, Ping Wang, Tongze Fu, Tianyi Zhao, Liang Cheng, Lei Shi, Xue Zhang
Nucleic Acids Research.2023; 51(D1): D717. CrossRef
The impact of environmental toxins on the animal gut microbiome and their potential to contribute to disease
Dinesh Nalage, Tejswini Sontakke, Ashwini Biradar, Vinod Jogdand, Ravindra Kale, Sanjay Harke, Rahul Kale, Prashant Dixit
Food Chemistry Advances.2023; 3: 100497. CrossRef
Fecal and cloacal microbiomes of cold-stunned loggerhead Caretta caretta, Kemp’s ridley Lepidochelys kempii, and green sea turtles Chelonia mydas
ZR Forbes, AK Scro, SH Patel, KM Dourdeville, RL Prescott, RM Smolowitz
Endangered Species Research.2023; 50: 93. CrossRef
A Two-Step Single Plex PCR Method for Evaluating Key Colonic Microbiota Markers in Young Mexicans with Autism Spectrum Disorders: Protocol and Pilot Epidemiological Application
Julián Herrera-Mejía, Rocío Campos-Vega, Abraham Wall-Medrano, Florinda Jiménez-Vega
Diagnostics.2023; 13(14): 2387. CrossRef
Effect of Concurrent Training on Body Composition and Gut Microbiota in Postmenopausal Women with Overweight or Obesity
MARINE DUPUIT, MÉLANIE RANCE, CLAIRE MOREL, PATRICE BOUILLON, AUDREY BOSCARO, VINCENT MARTIN, EMILIE VAZEILLE, NICOLAS BARNICH, BENOIT CHASSAING, NATHALIE BOISSEAU
Medicine & Science in Sports & Exercise.2022; 54(3): 517. CrossRef
Using integrated meta-omics to appreciate the role of the gut microbiota in epilepsy
Lucia Boeri, Francesca Donnaloja, Marzia Campanile, Lorenzo Sardelli, Marta Tunesi, Federica Fusco, Carmen Giordano, Diego Albani
Neurobiology of Disease.2022; 164: 105614. CrossRef
The gut microbiota as a biomarker in epilepsy
Emilio Russo
Neurobiology of Disease.2022; 163: 105598. CrossRef
Developing whole cell standards for the microbiome field
Chrysi Sergaki, Saba Anwar, Martin Fritzsche, Ryan Mate, Robert J. Francis, Kirsty MacLellan-Gibson, Alastair Logan, Gregory C. A. Amos
Microbiome.2022;[Epub] CrossRef
Changes in Vaginal Microbiome Diversity in Women With Polycystic Ovary Syndrome
Chaoyi Lu, Hui Wang, Jihong Yang, Xinyue Zhang, Yao Chen, Ruizhi Feng, Yun Qian
Frontiers in Cellular and Infection Microbiology.2021;[Epub] CrossRef
High-throughput 16S rDNA sequencing assisting in the detection of bacterial pathogen candidates: a fatal case of necrotizing fasciitis in a child
Dong Qu, Dong-Fang Qiao, Michael Klintschar, Zhi Qu, Xia Yue
International Journal of Legal Medicine.2021; 135(2): 399. CrossRef
Standardization of microbiome studies for urolithiasis: an international consensus agreement
Naveen Kachroo, Dirk Lange, Kristina L. Penniston, Joshua Stern, Gregory Tasian, Petar Bajic, Alan J. Wolfe, Mangesh Suryavanshi, Andrea Ticinesi, Tiziana Meschi, Manoj Monga, Aaron W. Miller
Nature Reviews Urology.2021; 18(5): 303. CrossRef
The Mammalian Metaorganism: A Holistic View on How Microbes of All Kingdoms and Niches Shape Local and Systemic Immunity
Solveig Runge, Stephan Patrick Rosshart
Frontiers in Immunology.2021;[Epub] CrossRef
Diet and the Microbiota–Gut–Brain Axis: Sowing the Seeds of Good Mental Health
Kirsten Berding, Klara Vlckova, Wolfgang Marx, Harriet Schellekens, Catherine Stanton, Gerard Clarke, Felice Jacka, Timothy G Dinan, John F Cryan
Advances in Nutrition.2021; 12(4): 1239. CrossRef
Interrogation of the perturbed gut microbiota in gouty arthritis patients through in silico metabolic modeling
Michael A. Henson
Engineering in Life Sciences.2021; 21(7): 489. CrossRef
A comprehensive review for gut microbes: technologies, interventions, metabolites and diseases
Changlu Qi, Ping Wang, Tongze Fu, Minke Lu, Yiting Cai, Xu Chen, Liang Cheng
Briefings in Functional Genomics.2021; 20(1): 42. CrossRef
Metagenomics Approaches to Investigate the Gut Microbiome of COVID-19 Patients
Sofia Sehli, Imane Allali, Rajaa Chahboune, Youssef Bakri, Najib Al Idrissi, Salsabil Hamdi, Chakib Nejjari, Saaïd Amzazi, Hassan Ghazal
Bioinformatics and Biology Insights.2021;[Epub] CrossRef
Potential role of the skin microbiota in Inflammatory skin diseases
Pan Chen, Guangwen He, Jingru Qian, Yi Zhan, Rong Xiao
Journal of Cosmetic Dermatology.2021; 20(2): 400. CrossRef
Current ocular microbiome investigations limit reproducibility and reliability: Critical review and opportunities
Erin M. Scott, Andrew C. Lewin, Marina L. Leis
Veterinary Ophthalmology.2021; 24(1): 4. CrossRef
Mining microbes for mental health: Determining the role of microbial metabolic pathways in human brain health and disease
Simon Spichak, Thomaz F.S. Bastiaanssen, Kirsten Berding, Klara Vlckova, Gerard Clarke, Timothy G. Dinan, John F. Cryan
Neuroscience & Biobehavioral Reviews.2021; 125: 698. CrossRef
Interactions between immune system and the microbiome of skin, blood and gut in pathogenesis of rosacea
Marie Isolde Joura, Alexandra Brunner, Éva Nemes-Nikodém, Miklós Sárdy, Eszter Ostorházi
Acta Microbiologica et Immunologica Hungarica.2021; 68(1): 1. CrossRef
The gut microbiome in drug‐resistant epilepsy
Simela Chatzikonstantinou, Georgia Gioula, Vasilios K. Kimiskidis, Jack McKenna, Ioannis Mavroudis, Dimitrios Kazis
Epilepsia Open.2021; 6(1): 28. CrossRef
Estimating included animal species in mixed crude drugs derived from animals using massively parallel sequencing
Hiroaki Nakanishi, Katsumi Yoneyama, Masaaki Hara, Aya Takada, Kazuyuki Saito
Scientific Reports.2021;[Epub] CrossRef
Effects of Xylo-Oligosaccharide on the Gut Microbiota of Patients With Ulcerative Colitis in Clinical Remission
Zongwei Li, Zhengpeng Li, Liying Zhu, Ning Dai, Gang Sun, Lihua Peng, Xin Wang, Yunsheng Yang
Frontiers in Nutrition.2021;[Epub] CrossRef
Recent advances in modulating the microbiome
Eamonn M.M Quigley, Prianka Gajula
F1000Research.2020; 9: 46. CrossRef
Tools for Analysis of the Microbiome
Jessica Galloway-Peña, Blake Hanson
Digestive Diseases and Sciences.2020; 65(3): 674. CrossRef
The potential role of interventions impacting on gut-microbiota in epilepsy
Luigi F Iannone, Maria Gómez-Eguílaz, Rita Citaro, Emilio Russo
Expert Review of Clinical Pharmacology.2020; 13(4): 423. CrossRef
State of the Art in the Culture of the Human Microbiota: New Interests and Strategies
Maryam Tidjani Alou, Sabrina Naud, Saber Khelaifia, Marion Bonnet, Jean-Christophe Lagier, Didier Raoult
Clinical Microbiology Reviews.2020;[Epub] CrossRef
Database limitations for studying the human gut microbiome
Camila K Dias, Robert Starke, Victor S. Pylro, Daniel K. Morais
PeerJ Computer Science.2020; 6: e289. CrossRef
Machine learning methods for microbiome studies
Junghyun Namkung
Journal of Microbiology.2020; 58(3): 206. CrossRef
Gut Microbiome Reveals Specific Dysbiosis in Primary Osteoporosis
Zhiming Xu, Zheng Xie, Jianguang Sun, Shilei Huang, Yangyang Chen, Chengxiang Li, Xing Sun, Bicheng Xia, Lingyang Tian, Caijuan Guo, Feng Li, Guofu Pi
Frontiers in Cellular and Infection Microbiology.2020;[Epub] CrossRef
Evaluation of cutaneous, oral and intestinal microbiota in patients affected by pemphigus and bullous pemphigoid: A pilot study
Giovanni Luca Scaglione, Luca Fania, Elisa De Paolis, Maria De Bonis, Cinzia Mazzanti, Giovanni Di Zenzo, Stefania Lechiancole, Serena Messinese, Ettore Capoluongo
Experimental and Molecular Pathology.2020; 112: 104331. CrossRef
Microecology research: a new target for the prevention of asthma
Hong-Lei Shi, Yu-Hao Lan, Zheng-Chuan Hu, Zi-Ning Yan, Ze-Zhong Liu, Xiriaili Kadier, Li Ma, Jin-Yan Yu, Jing Liu
Chinese Medical Journal.2020; 133(22): 2712. CrossRef
Omics Biomarkers in Obesity: Novel Etiological Insights and Targets for Precision Prevention
Krasimira Aleksandrova, Caue Egea Rodrigues, Anna Floegel, Wolfgang Ahrens
Current Obesity Reports.2020; 9(3): 219. CrossRef
Microbiome and colorectal cancer: Roles in carcinogenesis and clinical potential
Ester Saus, Susana Iraola-Guzmán, Jesse R. Willis, Anna Brunet-Vega, Toni Gabaldón
Molecular Aspects of Medicine.2019; 69: 93. CrossRef
Dietary quality and the colonic mucosa–associated gut microbiome in humans
Yanhong Liu, Nadim J Ajami, Hashem B El-Serag, Clark Hair, David Y Graham, Donna L White, Liang Chen, Zhensheng Wang, Sarah Plew, Jennifer Kramer, Rhonda Cole, Ruben Hernaez, Jason Hou, Nisreen Husain, Maria E Jarbrink-Sehgal, Fasiha Kanwal, Gyanprakash K
The American Journal of Clinical Nutrition.2019; 110(3): 701. CrossRef

Journal Articles

Proposal of three novel species of soil bacteria, Variovorax ureilyticus, Variovorax rhizosphaerae, and Variovorax robiniae, in the family Comamonadaceae: Tuan Manh Nguyen , Ngoc Hoang Trinh , Jaisoo Kim; J. Microbiol. 2018;56(7):485-492. Published online June 14, 2018; DOI: https://doi.org/10.1007/s12275-018-8025-3

66 View
0 Download
9 Crossref

Abstract

Three novel bacterial strains (UCM-2T, UCM-G28T, and UCM-G35T) were obtained while isolating soil bacteria for the development of antibiotics. Cells of these strains were Gram-negative, non-spore forming, motile by means of a single flagellum, and rod shaped. In all strains, the predominant isoprenoid quinone was ubiquinone-8 (Q-8). Cells contained C16:0, summed feature 3 (C16:1 ω7c and/or C16:1 ω6c), summed feature 8 (C18:1 ω7c and/or C18:1 ω6c), and C17:0 cyclo as the major fatty acids, and C10:0 3-OH as the major hydroxy fatty acid. The polar lipid profiles of the three novel strains were dominated by diphosphatidylglycerol, phosphatidylethanolamine, and phosphatidylglycerol. The genomic DNA G + C contents of strains UCM-2T, UCM-G28T, and UCMG35T were 67.5, 65.9, and 66.4 mol%, respectively. Phylogenetic analyses based on 16S rRNA sequences showed that strain UCM-2T was most closely related to Variovorax soli NBRC 106424T, whereas strains UCM-G28T and UCM-G35T were most similar to Variovorax ginsengisoli Gsoil 3165T. Values indicating DNA-DNA hybridization between the novel isolates and closely related species in the genus Variovorax were lower than the 70% cut-off point. These phenotypic, chemotaxonomic, and phylogenetic data indicate that the three isolates should be classified as new members of the genus Variovorax, for which the names Variovorax ureilyticus sp. nov., Variovorax rhizosphaerae sp. nov., and Variovorax robiniae sp. nov. are proposed. The type strains are UCM-2T (= KACC 18899T = NBRC 112306T), UCMG28T (= KACC 18900T = NBRC 112307T), and UCM-G35T (= KACC 18901T = NBRC 112308T), respectively.

Citations

Citations to this article as recorded by

Encephalartos natalensis association with non-cyanobacterial species increased reliance on atmospheric nitrogen in acidic and nutrient-deficient savanna woodland ecosystem soils
Siphelele Ndlovu, Nqobile Motsomane, Terence Suinyuy, Anathi Magadlela
Transactions of the Royal Society of South Africa.2024; : 1. CrossRef
The first reported case of human infection with Variovorax durovernensis; a novel Variovorax sp. Isolated from the prosthetic aortic graft of a shepherd
Lara Payne, Adela Alcolea-Medina, Luke B Snell, Christopher Alder, Themoula Charalampous, Jake D Turnbull, Jonathan D Edgeworth, Rahul Batra, John L Klein, Anna L Goodman
Clinical Infection in Practice.2024; 21: 100332. CrossRef
Encephalartos natalensis, Their Nutrient-Cycling Microbes and Enzymes: A Story of Successful Trade-Offs
Siphelele Ndlovu, Terence N. Suinyuy, María A. Pérez-Fernández, Anathi Magadlela
Plants.2023; 12(5): 1034. CrossRef
Variovorax durovernensis sp. nov., a novel species isolated from an infected prosthetic aortic graft in a human
Adela Alcolea-Medina, Luke B. Snell, Lara Payne, Christopher J. Alder, Jake D. Turnbull, Themoula Charalampous, Lisa Bryan, John L. Klein, Jonathan D. Edgeworth, Rahul Batra, Anna L. Goodman
International Journal of Systematic and Evolutionary Microbiology .2023;[Epub] CrossRef
Variovorax terrae sp. nov. Isolated from Soil with Potential Antioxidant Activity
Chae Yung Woo, Jaisoo Kim
Journal of Microbiology and Biotechnology.2022; 32(7): 855. CrossRef
Full Issue PDF

Phytobiomes Journal.2021; 5(1): 1. CrossRef
Nitrogen Fertilization Reduces Nitrogen Fixation Activity of Diverse Diazotrophs in Switchgrass Roots
Rahul A. Bahulikar, Srinivasa R. Chaluvadi, Ivone Torres-Jerez, Jagadish Mosali, Jeffrey L. Bennetzen, Michael Udvardi
Phytobiomes Journal.2021; 5(1): 80. CrossRef
Variovorax beijingensis sp. nov., a novel plant-associated bacterial species with plant growth-promoting potential isolated from different geographic regions of Beijing, China
Jun-lian Gao, Yu-chen Sun, Jing Xue, Pengbo Sun, Hui Yan, Mohammad Sayyar Khan, Li-wei Wang, Xiuhai Zhang, Jian-guang Sun
Systematic and Applied Microbiology.2020; 43(6): 126135. CrossRef
List of new names and new combinations previously effectively, but not validly, published
Aharon Oren, George M. Garrity
International Journal of Systematic and Evolutionary Microbiology.2018; 68(11): 3379. CrossRef

Promising cellulolytic fungi isolates for rice straw degradation: Diana Catalina Pedraza-Zapata , Andrea Melissa Sánchez-Garibello , Balkys Quevedo-Hidalgo , Nubia Moreno-Sarmiento , Ivonne Gutiérrez-Rojas; J. Microbiol. 2017;55(9):711-719. Published online September 2, 2017; DOI: https://doi.org/10.1007/s12275-017-6282-1

68 View
0 Download
17 Crossref

Abstract

The objective of this study was to evaluate the potential of eight fungal isolates obtained from soils in rice crops for straw degradation in situ. From the initial eight isolates, Pleurotus ostreatus T1.1 and Penicillium sp. HC1 were selected for further characterization based on qualitative cellulolytic enzyme production and capacity to use rice straw as a sole carbon source. Subsequently, cellulolytic, xylanolytic, and lignolytic (Pleurotus ostreatus) activity on carboxymethyl cellulose, oat xylan, and rice straw with different nitrogen sources was evaluated. From the results obtained it was concluded both isolates are capable to produce enzymes necessary for rice straw degradation. However, their production is dependent upon carbon and nitrogen source. Last, it was established that Pleurotus ostreatus T1.1 and Penicillium sp. HC1 capability to colonize and mineralize rice straw, in mono-and co-culture, without affecting nitrogen soil content.

Citations

Citations to this article as recorded by

Unravelling of cellulolytic fungal consortium from humus soil for efficient lignocellulosic waste degradation
H.K. Narendra Kumar, N. Chandra Mohana, Jayarama Reddy, M.R. Abhilash, S. Satish
The Microbe.2024; 5: 100183. CrossRef
Sustainability in residue management: a review with special reference to Indian agriculture
Meenakshi Verma, Pooja Singh, Manikprabhu Dhanorkar
Paddy and Water Environment.2024; 22(1): 1. CrossRef
Crop residue heterogeneity: Decomposition by potential indigenous ligno-cellulolytic microbes and enzymatic profiling
Sandeep Sharma, Kailash Chand Kumawat, Paawan Kaur, Sukhjinder Kaur, Nihar Gupta
Current Research in Microbial Sciences.2024; 6: 100227. CrossRef
Recent developments in microbial degradation of crop residues: a comprehensive review
K. S. Sruthy, S. Puranik, V. Kumar, A. Kaushik, K. V. Vikram, M. Manoj, L. Shukla, S. K. Singh, A. Kumar
International Journal of Environmental Science and Technology.2024;[Epub] CrossRef
Fungal Saprotrophic Promotion and Plant Pathogenic Suppression under Ditch-Buried Straw Return with Appropriate Burial Amount and Depth
Jie Zhou, Yanling Li, Jiawen Lou, Yuekai Wang, Zhengrong Kan, Reinhard W. Neugschwandtner, Fengmin Li, Jian Liu, Ke Dong, Yaguang Xue, Haishui Yang, Lingling Shi
Plants.2024; 13(13): 1738. CrossRef
Rice crop residue management by the microbial consortium for rapid decomposition of straw
Kunvar Gyanendra Kumar, Raja Husain, Anurag Mishra, Nitin Vikram, Devendra Kumar Dwivedi, Saurabh Pandey, Ashutosh Singh
3 Biotech.2024;[Epub] CrossRef
Highly variable domain architecture in carbohydrate-active enzymes highlights Streptomyces as promising resource for rice straw bioconversion
Andika Sidar, Gerben P. Voshol, Ahmed El-Masoudi, Erik Vijgenboom, Peter J. Punt
Bioresource Technology Reports.2024; 25: 101775. CrossRef
Isolation and Characterization of Cellulolytic Fungi From Decomposing Rice Straws
Shir Nee Ong, Chin Mei Lee
Malaysian Applied Biology.2023; 52(4): 1. CrossRef
Biodegradation of Gossypol by Aspergillus terreus-YJ01
Yao Jiang, Xinyue Du, Qianqian Xu, Chunhua Yin, Haiyang Zhang, Yang Liu, Xiaolu Liu, Hai Yan
Microorganisms.2023; 11(9): 2148. CrossRef
Tomato plant extract (Lycopersicon esculentum) obtained from agroindustrial byproducts and its antifungal activity against Fusarium spp.
Luis M. Isidro-Requejo, Enrique Márquez-Ríos, Carmen L. Del Toro-Sánchez, Saúl Ruiz-Cruz, Daniel Valero-Garrido, Guadalupe M. Suárez-Jiménez
Frontiers in Sustainable Food Systems.2023;[Epub] CrossRef
Mixed Cultures of Aspergillus niger and Rhizopus oryzae Using Lignocellulosic Substrates to Improve Hydrolytic Enzyme Production
Esteban Amador Morilla, Antonela Taddia, Maximiliano Sortino, Gisela Tubio
BioEnergy Research.2023; 16(4): 2285. CrossRef
Identification of volatile components and growth promoting effects of endophytes of Tinospora capillipes Gagnep.
Qianxi Li, Siyu Wang, Senmiao Chen, Yini Shang, Fangmei Zhou, Jie Yu, Zhishan Ding, Xiaoqing Ye
Journal of Plant Pathology.2022; 105(1): 57. CrossRef
Degradation of lignocelluloses in straw using AC-1, a thermophilic composite microbial system
Hongdou Liu, Liqiang Zhang, Yu Sun, Guangbo Xu, Weidong Wang, Renzhe Piao, Zongjun Cui, Hongyan Zhao
PeerJ.2021; 9: e12364. CrossRef
Wheat straw hydrolysis by using co-cultures of Trichoderma reesei and Monascus purpureus toward enhanced biodegradation of the lignocellulosic biomass in bioethanol biorefinery
Shabih Fatma, Aimen Saleem, Romana Tabassum
Biomass Conversion and Biorefinery.2021; 11(3): 743. CrossRef
WITHDRAWN: Paddy straw procurement challenges and its effect on cost of power generation
Manjeet Singh, Yadwinder Singh Brar, Harpuneet Singh
Materials Today: Proceedings.2021;[Epub] CrossRef
Control biológico: Camino a la agricultura moderna
Diana Marcela Vinchira-Villarraga, Nubia Moreno-Sarmiento
Revista Colombiana de Biotecnología.2019; 21(1): 2. CrossRef
Characterization of an Anaerobic, Thermophilic, Alkaliphilic, High Lignocellulosic Biomass-Degrading Bacterial Community, ISHI-3, Isolated from Biocompost
Ayumi Shikata, Junjarus Sermsathanaswadi, Phakhinee Thianheng, Sirilak Baramee, Chakrit Tachaapaikoon, Rattiya Waeonukul, Patthra Pason, Khanok Ratanakhanokchai, Akihiko Kosugi
Enzyme and Microbial Technology.2018; 118: 66. CrossRef

Development of recombinant Yarrowia lipolytica producing virus-like particles of a fish nervous necrosis virus: Van-Trinh Luu , Hye Yun Moon , Jee Youn Hwang , Bo-Kyu Kang , Hyun Ah Kang; J. Microbiol. 2017;55(8):655-664. Published online July 28, 2017; DOI: https://doi.org/10.1007/s12275-017-7218-5

98 View
0 Download
20 Crossref

Abstract

Nervous necrosis virus (NNV) causes viral encephalopathy and retinopathy, a devastating disease of many species of cultured marine fish worldwide. In this study, we used the dimorphic non-pathogenic yeast Yarrowia lipolytica as a host to express the capsid protein of red-spotted grouper nervous necrosis virus (RGNNV-CP) and evaluated its potential as a platform for vaccine production. An initial attempt was made to express the codon-optimized synthetic genes encoding intact and N-terminal truncated forms of RGNNV-CP under the strong constitutive TEF1 promoter using autonomously replicating sequence (ARS)-based vectors. The full-length recombinant capsid proteins expressed in Y. lipolytica were detected not only as monomers and but also as trimers, which is a basic unit for formation of NNV virus-like particles (VLPs). Oral immunization of mice with whole recombinant Y. lipolytica harboring the ARSbased plasmids was shown to efficiently induce the formation of IgG against RGNNV-CP. To increase the number of integrated copies of the RGNNV-CP expression cassette, a set of 26S ribosomal DNA-based multiple integrative vectors was constructed in combination with a series of defective Ylura3 with truncated promoters as selection markers, resulting in integrants harboring up to eight copies of the RGNNVCP cassette. Sucrose gradient centrifugation and transmission electron microscopy of this high-copy integrant were carried out to confirm the expression of RGNNV-CPs as VLPs. This is the first report on efficient expression of viral capsid proteins as VLPs in Y. lipolytica, demonstrating high potential for the Y. lipolytica expression system as a platform for recombinant vaccine production based on VLPs.

Citations

Citations to this article as recorded by

Elucidation and engineering of Sphingolipid biosynthesis pathway in Yarrowia lipolytica for enhanced production of human-type sphingoid bases and glucosylceramides
Seo Hyeon Shin, Hye Yun Moon, Hae Eun Park, Gi Jeong Nam, Ju Hye Baek, Che Ok Jeon, Hyunwook Jung, Myeong Seok Cha, Sol Choi, Jeong Jun Han, Chen Yuan Hou, Chang Seo Park, Hyun Ah Kang
Metabolic Engineering.2025; 87: 68. CrossRef
Sustainable aquaculture and sea ranching with the use of vaccines: a review
Alma Alfatat, Kwaku Amoah, Jia Cai, Yu Huang, Muhammad Fachri, Hagai Nsobi Lauden, Shaoliang Lyu, Xuefeng Wang, Sahya Maulu, Berchie Asiedu, Syaifiuddin Syaifiuddin
Frontiers in Marine Science.2025;[Epub] CrossRef
Yeast-Based Virus-like Particles as an Emerging Platform for Vaccine Development and Delivery
Vartika Srivastava, Kripa N. Nand, Aijaz Ahmad, Ravinder Kumar
Vaccines.2023; 11(2): 479. CrossRef
Humoral immune response in Asian seabass vaccinated with inactivated and recombinant viral nervous necrosis vaccine
M. Makesh, N. Venkata Satyanarayana, K. Muddukrishnaiah, Sujeet Kumar, G. Thiagarajan, Ashok Kumar Jangam, R. Subburaj, M. Kailasam, K.K. Vijayan
Aquaculture.2023; 569: 739384. CrossRef
Biomanufacturing of γ-linolenic acid-enriched galactosyldiacylglycerols: Challenges in microalgae and potential in oleaginous yeasts
Xiaosong Gu, Lei Huang, Jiazhang Lian
Synthetic and Systems Biotechnology.2023; 8(3): 469. CrossRef
Yeast as carrier for drug delivery and vaccine construction
Yifu Tan, Liwei Chen, Ke Li, Beibei Lou, Yanfei Liu, Zhenbao Liu
Journal of Controlled Release.2022; 346: 358. CrossRef
Construction of Attenuated Strains for Red-Spotted Grouper Nervous Necrosis Virus (RGNNV) via Reverse Genetic System
Yingying Lei, Yu Xiong, Dagang Tao, Tao Wang, Tianlun Chen, Xufei Du, Gang Cao, Jiagang Tu, Jinxia Dai
Viruses.2022; 14(8): 1737. CrossRef
Long-Term Protection and Serologic Response of European Sea Bass Vaccinated with a Betanodavirus Virus-Like Particle Produced in Pichia pastoris
Sofie Barsøe, Anna Toffan, Francesco Pascoli, Ansgar Stratmann, Tobia Pretto, Andrea Marsella, Mériem Er-Rafik, Niccolò Vendramin, Niels J. Olesen, Dagoberto Sepúlveda, Niels Lorenzen
Vaccines.2021; 9(5): 447. CrossRef
Plant-Produced Vaccines: Future Applications in Aquaculture
Hang Su, Igor A. Yakovlev, André van Eerde, Jianguo Su, Jihong Liu Clarke
Frontiers in Plant Science.2021;[Epub] CrossRef
Recombinant Baculovirus-Produced Grass Carp Reovirus Virus-Like Particles as Vaccine Candidate That Provides Protective Immunity against GCRV Genotype II Infection in Grass Carp
Ting Gao, Caixia Gao, Siyu Wu, Yingying Wang, Jiyuan Yin, Yingying Li, Weiwei Zeng, Sven M. Bergmann, Qing Wang
Vaccines.2021; 9(1): 53. CrossRef
Developing oral nanovaccines for fish: a modern trend to fight infectious diseases
Carlos Angulo, Marlene Tello‐Olea, Martha Reyes‐Becerril, Elizabeth Monreal‐Escalante, Luis Hernández‐Adame, Miriam Angulo, José M. Mazon‐Suastegui
Reviews in Aquaculture.2021; 13(3): 1172. CrossRef
Contribution of yeast models to virus research
R Sahaya Glingston, Jyoti Yadav, Jitika Rajpoot, Neha Joshi, Shirisha Nagotu
Applied Microbiology and Biotechnology.2021; 105(12): 4855. CrossRef
Yarrowia lipolytica, health benefits for animals
Francisco A. Guardiola, María Ángeles Esteban, Carlos Angulo
Applied Microbiology and Biotechnology.2021; 105(20): 7577. CrossRef
Betanodavirus and VER Disease: A 30-year Research Review
Isabel Bandín, Sandra Souto
Pathogens.2020; 9(2): 106. CrossRef
Yeast synthetic biology for designed cell factories producing secretory recombinant proteins
Eun Jung Thak, Su Jin Yoo, Hye Yun Moon, Hyun Ah Kang
FEMS Yeast Research.2020;[Epub] CrossRef
Yeast-based vaccines: New perspective in vaccine development and application
Ravinder Kumar, Piyush Kumar
FEMS Yeast Research.2019;[Epub] CrossRef
Development of conditional cell lysis mutants of Saccharomyces cerevisiae as production hosts by modulating OCH1 and CHS3 expression
Van-Trinh Luu, Hye Yun Moon, Su Jin Yoo, Jin Ho Choo, Eun Jung Thak, Hyun Ah Kang
Applied Microbiology and Biotechnology.2019; 103(5): 2277. CrossRef
An effective and rapid method for RNA preparation from non-conventional yeast species
Dong Wook Lee, Chang Pyo Hong, Hyun Ah Kang
Analytical Biochemistry.2019; 586: 113408. CrossRef
A Review of Fish Vaccine Development Strategies: Conventional Methods and Modern Biotechnological Approaches
Jie Ma, Timothy J. Bruce, Evan M. Jones, Kenneth D. Cain
Microorganisms.2019; 7(11): 569. CrossRef
Vaccination with UV-inactivated nodavirus partly protects European sea bass against infection, while inducing few changes in immunity
Yulema Valero, Djamal Mokrani, Elena Chaves-Pozo, Marta Arizcun, Mustapha Oumouna, José Meseguer, M.Ángeles Esteban, Alberto Cuesta
Developmental & Comparative Immunology.2018; 86: 171. CrossRef

NMR-based metabolomics reveals the metabolite profiles of Vibrio parahaemolyticus under ferric iron stimulation: Jun Zhou , Chenyang Lu , Dijun Zhang , Chennv Ma , Xiurong Su; J. Microbiol. 2017;55(8):628-634. Published online July 28, 2017; DOI: https://doi.org/10.1007/s12275-017-6551-z

77 View
0 Download
6 Crossref

Abstract

Vibrio parahaemolyticus is a halophilic bacterium endemic to coastal areas, and its pathogenicity has caused widespread seafood poisoning. In our previous research, the protein expression of V. parahaemolyticus in Fe3+ medium was determined using isobaric tags for relative and absolute quantitation (iTRAQ). Here, nuclear magnetic resonance (NMR) was used to detect changes in the V. parahaemolyticus metabolome. NMR spectra were obtained using methanol-water extracts of intracellular metabolites from V. parahaemolyticus under various culture conditions, and 62 metabolites were identified, including serine, arginine, alanine, ornithine, tryptophan, glutamine, malate, NAD+, NADP+, oxypurinol, xanthosine, dCTP, uracil, thymine, hypoxanthine, and betaine. Among these, 21 metabolites were up-regulated after the stimulation of the cells by ferric iron, and 9 metabolites were down-regulated. These metabolites are involved in amino acid and protein synthesis, energy metabolism, DNA and RNA synthesis and osmolality. Based on these results, we conclude that Fe3+ influences the metabolite profiles of V. parahaemolyticus.

Citations

Citations to this article as recorded by

Multifunctional Bimetallic Nanoreactors for Integrative Host‐Pathogen Analysis Toward Bloodstream Infection Diagnosis
Ayizekeranmu Yiming, Yuewei Zhao, Hongwei Meng, Shouzhi Yang, Chunmeng Ding, Ruiming Wang, Haiyang Su, Wei Chen, Wanshan Liu, Yan Zhou, Xvelian Li, Haojie Jin, Jiayi Wang, Kun Qian, Lin Huang
Advanced Functional Materials.2025;[Epub] CrossRef
Potential role of alginate in marine bacteria-yeast interactions
Shota Nakata, Ryuichi Takase, Shigeyuki Kawai, Kohei Ogura, Wataru Hashimoto, Jennifer B. Glass
Applied and Environmental Microbiology.2024;[Epub] CrossRef
ZrgA contributes to zinc acquisition in Vibrio parahaemolyticus
Chengkun Zheng, Jun Qiu, Yimeng Zhai, Man Wei, Xiaohui Zhou, Xinan Jiao
Virulence.2023;[Epub] CrossRef
1H NMR-based water-soluble lower molecule characterization and fatty acid composition of Chinese native chickens and commercial broiler
Zhichao Xiao, Wangang Zhang, Hongtao Yang, Ziyu Yan, Changrong Ge, Guozhou Liao, Huawei Su
Food Research International.2021; 140: 110008. CrossRef
Itaconic acid inhibits growth of a pathogenic marine Vibrio strain: A metabolomics approach
Thao Van Nguyen, Andrea C. Alfaro, Tim Young, Saras Green, Erica Zarate, Fabrice Merien
Scientific Reports.2019;[Epub] CrossRef
New Insights Into the Response of Metabolome of Escherichia coli O157:H7 to Ohmic Heating
Xiaojing Tian, Qianqian Yu, Donghao Yao, Lele Shao, Zhihong Liang, Fei Jia, Xingmin Li, Teng Hui, Ruitong Dai
Frontiers in Microbiology.2018;[Epub] CrossRef

Crystal structure of the inactive state of the receiver domain of Spo0A from Paenisporosarcina sp. TG-14, a psychrophilic bacterium isolated from an Antarctic glacier: Chang Woo Lee , Sun-Ha Park , Sung Gu Lee , Seung Chul Shin , Se Jong Han , Han-Woo Kim , Hyun Ho Park , Sunghwan Kim , Hak Jun Kim , Hyun Park , HaJeung Park , Jun Hyuck Lee; J. Microbiol. 2017;55(6):464-474. Published online March 9, 2017; DOI: https://doi.org/10.1007/s12275-017-6599-9

72 View
0 Download
1 Crossref

Abstract

The two-component phosphorelay system is the most pre-valent mechanism for sensing and transducing environ-mental signals in bacteria. Spore formation, which relies on the two-component phosphorelay system, enables the long- term survival of the glacial bacterium Paenisporosarcina sp. TG-14 in the extreme cold environment. Spo0A is a key re-sponse regulator of the phosphorelay system in the early stage of spore formation. The protein is composed of a regu-latory N-terminal phospho-receiver domain and a DNA- binding C-terminal activator domain. We solved the three- dimensional structure of the unphosphorylated (inactive) form of the receiver domain of Spo0A (PaSpo0A-R) from Paenisporosarcina sp. TG-14. A structural comparison with phosphorylated (active form) Spo0A from Bacillus stearo-thermophilus (BsSpo0A) showed minor notable differences. A molecular dynamics study of a model of the active form and the crystal structures revealed significant differences in the α4 helix and the preceding loop region where phosphorylation occurs. Although an oligomerization study of PaSpo0A-R by analytical ultracentrifugation (AUC) has shown that the protein is in a monomeric state in solution, both crosslinking and crystal-packing analyses indicate the possibility of weak dimer formation by a previously undocumented mechanism. Collectively, these observations provide insight into the me-chanism of phosphorylation-dependent activation unique to Spo0A.

Citations

Citations to this article as recorded by

Identification of Functional Spo0A Residues Critical for Sporulation in Clostridioides difficile
Michael A. DiCandia, Adrianne N. Edwards, Joshua B. Jones, Grace L. Swaim, Brooke D. Mills, Shonna M. McBride
Journal of Molecular Biology.2022; 434(13): 167641. CrossRef

Azohydromonas riparia sp. nov. and Azohydromonas ureilytica sp. nov. isolated from a riverside soil in South Korea: Tuan Manh Nguyen , Jaisoo Kim; J. Microbiol. 2017;55(5):330-336. Published online January 26, 2017; DOI: https://doi.org/10.1007/s12275-017-6519-z

67 View
0 Download
15 Crossref

Abstract

White and pale yellow coloured bacteria were isolated from the riverside soil, Daejeon, South Korea, and were designated UCM-11T, UCM-F25, and UCM-80T. We found that all strains were able to reduce nitrate, and the cells were aerobic and motile. The DNA G+C contents of UCM-11T, UCM-F25, and UCM-80T were between 68.9 to 71.2 mol% and the main ubiquinone was observed as Q-8. Based on16S rRNA gene sequences, strains UCM-11T and UCM-F25 were found to closely match with Azohydromonas australica IAM 12664T (98.48–98.55%), and the strain UCM-80T was the closest match with Azohydromonas lata IAM 12599T (98.34%). The presence of summed feature 3 (C16:1ω7c and/or C16:1ω6c), C16:0, summed feature 8 (C18:1ω7c and/or C18:1ω6c) as well as twokinds of hydroxyfatty acids consisting of C10:0 3-OH and C12:0 2-OH, and branched fatty acids containing C16:0 iso and C17:0 cyclo were detected in all the strains. Phosphatidy-lethanolamine was a major polar lipid. DNA–DNA related-ness confirmed UCM-11T, UCM-F25 and UCM-80T as novel members of the genus Azohydromonas. Based on the mor-phological, physiological, biochemical and genotypic char-acteristics, we suggest that strains UCM-11T, UCM-F25, and UCM-80T represent novel species within the genus Azohy-dromonas. The names Azohydromonas riparia sp. nov., and Azohydromonas ureilytica sp. nov. are proposed for the type strains UCM-11T (=KACC 18570T =NBRC 111646T) and UCM-80T (=KACC 18576T =NBRC 111658T), respectively.

Citations

Citations to this article as recorded by

Nitrogen-cycling microbial communities respond differently to nitrogen addition under two contrasting grassland soil types
Baihui Ren, Xinwei Ma, Daiyan Li, Long Bai, Jiahuan Li, Jianxin Yu, Meng Meng, Haoyan Li
Frontiers in Microbiology.2024;[Epub] CrossRef
Mechanisms of biochar assisted di-2-ethylhexyl phthalate (DEHP) biodegradation in tomato rhizosphere by metabolic and metagenomic analysis
Zhong Lin, Weijian Wu, Changhong Yang, Guiqiong Yang, Weilong Wu, Ting Wei, Fengcheng Huang, Huijun Li, Lei Ren, Yanqiu Liang, Dayi Zhang, Zhe Li, Zhen Zhen
Chemosphere.2024; 353: 141520. CrossRef
Constructed wetlands using recycled aggregates for the improved treatment of tailwater
Hui Wang, Xianghua Wang, Yaou Yang, Wen Dong, Yue Ma, Jiake Li, Haiyu Meng, Zhe Wang, Dongqi Wang, Chunbo Jiang, Yajiao Li
Journal of Environmental Management.2024; 372: 123328. CrossRef
Biodegradation of the emerging contaminant 3-nitro-1,2,4-triazol-5-one and its product 3-amino-1,2,4-triazol-5-one in perlite/soil columns
Erika E. Rios-Valenciana, Osmar Menezes, Corey Blubaum, Jonathan Romero, Mark J. Krzmarzick, Reyes Sierra-Alvarez, Jim A. Field
Chemosphere.2023; 335: 139121. CrossRef
Development and characterizations of hydrogenotrophic denitrification granular process: Nitrogen removal capacity and adaptability
Sike Wang, Yajiao Wang, Peng Li, Li Wang, Qingxian Su, Jiane Zuo
Bioresource Technology.2022; 363: 127973. CrossRef
The phylogeny of the genus Azohydromonas supports its transfer to the family Comamonadaceae
Ezequiel Gerardo Mogro, Juan Hilario Cafiero, Mauricio Javier Lozano, Walter Omar Draghi
International Journal of Systematic and Evolutionary Microbiology.2022;[Epub] CrossRef
Use of a packed-bed biofilm reactor to achieve rapid formation of anammox biofilms for high-rate nitrogen removal
Ying-yu Li, Xiao-wu Huang, Xiao-yan Li
Journal of Cleaner Production.2021; 321: 128999. CrossRef
Azohydromonas caseinilytica sp. nov., a Nitrogen-Fixing Bacterium Isolated From Forest Soil by Using Optimized Culture Method
Ram Hari Dahal, Dhiraj Kumar Chaudhary, Dong-Uk Kim, Jaisoo Kim
Frontiers in Microbiology.2021;[Epub] CrossRef
α-Terpineol fumigation alleviates negative plant-soil feedbacks of Panax notoginseng via suppressing Ascomycota and enriching antagonistic bacteria
Chen Ye, Yixiang Liu, Junxing Zhang, Tianyao Li, Yijie Zhang, Cunwu Guo, Min Yang, Xiahong He, Youyong Zhu, Huichuan Huang, Shusheng Zhu
Phytopathology Research.2021;[Epub] CrossRef
Azohydromonas aeria sp. nov., isolated from air
Han Xue, Chun-gen Piao, Dan-ran Bian, Min-wei Guo, Yong Li
Journal of Microbiology.2020; 58(7): 543. CrossRef
Effects of static magnetic field on the performances of anoxic/oxic sequencing batch reactor
Bo Hu, Yilin Wang, Jianing Quan, Kun Huang, Xin Gu, Jitao Zhu, Yi Yan, Pei Wu, Liwei Yang, Jianqiang Zhao
Bioresource Technology.2020; 309: 123299. CrossRef
Ora-pro-nobis (Pereskia aculeata Mill.) Nutrition as Related to Soil Chemical and Physical Attributes and Plant Growth-Promoting Microorganisms
César Florentino Puma Vega, Karl Kemmelmeier, Márcia Rufini, Teotonio Soares de Carvalho, Fatima Maria de Souza Moreira
Journal of Soil Science and Plant Nutrition.2020; 20(4): 1637. CrossRef
Metagenomic analysis exploring microbial assemblages and functional genes potentially involved in di (2-ethylhexyl) phthalate degradation in soil
Fengxiao Zhu, Evelyn Doyle, Changyin Zhu, Dongmei Zhou, Cheng Gu, Juan Gao
Science of The Total Environment.2020; 715: 137037. CrossRef
List of novel names and novel combinations previously effectively, but not validly, published
Aharon Oren, George M. Garrity
International Journal of Systematic and Evolutionary Microbiology .2017; 67(7): 2075. CrossRef
Limnobacter humi sp. nov., a thiosulfate-oxidizing, heterotrophic bacterium isolated from humus soil, and emended description of the genus Limnobacter Spring et al. 2001
Tuan Manh Nguyen, Jaisoo Kim
Journal of Microbiology.2017; 55(7): 508. CrossRef

First
Prev
Page of 4
Next
Last

Search