Journal of Microbiology

Journal Articles

Licochalcone A Protects Vaginal Epithelial Cells Against Candida albicans Infection Via the TLR4/NF-κB Signaling Pathway: Wei Li, Yujun Yin, Taoqiong Li, Yiqun Wang, Wenyin Shi; J. Microbiol. 2024;62(7):525-533. Published online May 31, 2024; DOI: https://doi.org/10.1007/s12275-024-00134-z

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Abstract: Vulvovaginal candidiasis (VVC) is a prevalent condition affecting a significant portion of women worldwide. Licochalcone A (LA), a natural compound with diverse biological activities, holds promise as a protective agent against Candida albicans (C. albicans) infection. This study aims to investigate the potential of LA to safeguard vaginal epithelial cells (VECs) from C. albicans infection and elucidate the underlying molecular mechanisms. To simulate VVC in vitro, VK2-E6E7 cells were infected with C. albicans. Candida albicans biofilm formation, C. albicans adhesion to VK2-E6E7 cells, and C. albicans-induced cell damage and inflammatory responses were assessed by XTT reduction assay, fluorescence assay, LDH assay, and ELISA. CCK-8 assay was performed to evaluate the cytotoxic effects of LA on VK2-E6E7 cells. Western blotting assay was performed to detect protein expression. LA dose-dependently hindered C. albicans biofilm formation and adhesion to VK2-E6E7 cells. Furthermore, LA mitigated cell damage, inhibited the Bax/Bcl-2 ratio, and attenuated the secretion of pro-inflammatory cytokines in C. albicans-induced VK2-E6E7 cells. The investigation into LA's impact on the Toll-like receptor 4 (TLR4)/nuclear factor-kappa B (NF-κB) pathway revealed that LA downregulated TLR4 expression and inhibited NF-κB activation in C. albicans-infected VK2-E6E7 cells. Furthermore, TLR4 overexpression partially abated LA-mediated protection, further highlighting the role of the TLR4/NF-κB pathway. LA holds the potential to safeguard VECs against C. albicans infection, potentially offering therapeutic avenues for VVC management.

Development of a Novel D‑Lactic Acid Production Platform Based on Lactobacillus saerimneri TBRC 5746: Kitisak Sansatchanon , Pipat Sudying , Peerada Promdonkoy , Yutthana Kingcha , Wonnop Visessanguan , Sutipa Tanapongpipat , Weerawat Runguphan , Kanokarn Kocharin; J. Microbiol. 2023;61(9):853-863. Published online September 14, 2023; DOI: https://doi.org/10.1007/s12275-023-00077-x

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D-Lactic acid is a chiral, three-carbon organic acid, that bolsters the thermostability of polylactic acid. In this study, we developed a microbial production platform for the high-titer production of D-lactic acid. We screened 600 isolates of lactic acid bacteria (LAB) and identified twelve strains that exclusively produced D-lactic acid in high titers. Of these strains, Lactobacillus saerimneri TBRC 5746 was selected for further development because of its homofermentative metabolism. We investigated the effects of high temperature and the use of cheap, renewable carbon sources on lactic acid production and observed a titer of 99.4 g/L and a yield of 0.90 g/g glucose (90% of the theoretical yield). However, we also observed L-lactic acid production, which reduced the product’s optical purity. We then used CRISPR/dCas9-assisted transcriptional repression to repress the two Lldh genes in the genome of L. saerimneri TBRC 5746, resulting in a 38% increase in D-lactic acid production and an improvement in optical purity. This is the first demonstration of CRISPR/dCas9-assisted transcriptional repression in this microbial host and represents progress toward efficient microbial production of D-lactic acid.

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Industrial–scale production of various bio–commodities by engineered microbial cell factories: Strategies of engineering in microbial robustness
Ju-Hyeong Jung, Vinoth Kumar Ponnusamy, Gopalakrishnan Kumar, Bartłomiej Igliński, Vinod Kumar, Grzegorz Piechota
Chemical Engineering Journal.2024; 502: 157679. CrossRef
Microbial Cell Factories: Biodiversity, Pathway Construction, Robustness, and Industrial Applicability
Rida Chaudhary, Ali Nawaz, Mireille Fouillaud, Laurent Dufossé, Ikram ul Haq, Hamid Mukhtar
Microbiology Research.2024; 15(1): 247. CrossRef
Adaptive Evolution for the Efficient Production of High-Quality d-Lactic Acid Using Engineered Klebsiella pneumoniae
Bo Jiang, Jiezheng Liu, Jingnan Wang, Guang Zhao, Zhe Zhao
Microorganisms.2024; 12(6): 1167. CrossRef
Enhancing D-lactic acid production from non-detoxified corn stover hydrolysate via innovative F127-IEA hydrogel-mediated immobilization of Lactobacillus bulgaricus T15
Yuhan Zheng, Feiyang Sun, Siyi Liu, Gang Wang, Huan Chen, Yongxin Guo, Xiufeng Wang, Maia Lia Escobar Bonora, Sitong Zhang, Yanli Li, Guang Chen
Frontiers in Microbiology.2024;[Epub] CrossRef

Correlation between fat accumulation and fecal microbiota in crossbred pigs: Xin Li , Mengyu Li , Jinyi Han , Chuang Liu , Xuelei Han , Kejun Wang , Ruimin Qiao , Xiu-Ling Li , Xin-Jian Li; J. Microbiol. 2022;60(11):1077-1085. Published online September 9, 2022; DOI: https://doi.org/10.1007/s12275-022-2218-5

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Abstract

Backfat thickness (BF) is an important indicator of fat deposition capacity and lean meat rate in pigs and is very important in porcine genetics and breeding. Intestinal microbiota plays a key role in nutrient digestion and utilization with a profound impact on fat deposition of livestock animals. To investigate the relationship between the pig gut microbiome and BF, 20 low-BF (L-BF) and 20 high-BF (H-BF) pigs were selected as two groups from Yunong Black pigs in the present study. Fecal samples from pigs were analyzed for microbial diversity, composition, and predicted functionality using 16S rRNA gene sequencing. The results showed that there were significant differences in microbial β diversity between the two groups. LEfSe analysis revealed a number of bacterial features being differentially enriched in either L-BF or H-BF pigs. Spearman correlation analysis identified the abundance of Oscillospira, Peptococcus, and Bulleidia were significantly positive correlations with BF (P < 0.05), while Sutterella and Bifidobacterium were significantly negatively correlated with BF (P < 0.05). Importantly, the bacteria significantly positively correlated with BF mainly belong to Clostridium, which can ferment host-indigestible plant polysaccharides into shortchain fatty acid (SCFA) and promote fat synthesis and deposition. Predictive functional analysis indicated that the pathway abundance of cell motility and glycan biosynthesis were significantly widespread in the microbiota of the H-BF group. The results of this study will be useful for the development of microbial biomarkers for predicting and improving porcine BF, as well as for the investigation of targets for dietary strategies.

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Carboxymethyl chitosan-dialdehyde glucan/polydopamine carrier targeted delivery Bacillus subtilis on enhancing oral utilization and intestinal colonization in mice
Lulu Chu, Luyu Xie, Bingzhi Chen, Yuji Jiang, Wenjie Wang
International Journal of Biological Macromolecules.2024; 280: 135574. CrossRef
Impact of Early Weaning on Development of the Swine Gut Microbiome
Benoit St-Pierre, Jorge Yair Perez Palencia, Ryan S. Samuel
Microorganisms.2023; 11(7): 1753. CrossRef
Comparison of Conjunctival Sac Microbiome between Low and High Myopic Eyes
Kang Xiao, Zhengyu Chen, Qin Long
Journal of Microbiology.2023; 61(5): 571. CrossRef

Rab27b regulates extracellular vesicle production in cells infected with Kaposi’s sarcoma–associated herpesvirus to promote cell survival and persistent infection: Hyungtaek Jeon , Su-Kyung Kang , Myung-Ju Lee , Changhoon Park , Seung-Min Yoo , Yun Hee Kang , Myung-Shin Lee; J. Microbiol. 2021;59(5):522-529. Published online April 20, 2021; DOI: https://doi.org/10.1007/s12275-021-1108-6

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Abstract

Extracellular vesicles (EVs) play a crucial role in cell-to-cell communication. EVs and viruses share several properties related to their structure and the biogenesis machinery in cells. EVs from virus-infected cells play a key role in virus spread and suppression using various loading molecules, such as viral proteins, host proteins, and microRNAs. However, it remains unclear how and why viruses regulate EV production inside host cells. The purpose of this study is to investigate the molecular mechanisms underlying EV production and their roles in Kaposi’s sarcoma-associated herpesvirus (KSHV)-infected cells. Here, we found that KSHV induced EV production in human endothelial cells via Rab- 27b upregulation. The suppression of Rab27b expression in KSHV-infected cells enhanced cell death by increasing autophagic flux and autolysosome formation. Our results indicate that Rab27b regulates EV biogenesis to promote cell survival and persistent viral infection during KSHV infection, thereby providing novel insights into the crucial role of Rab- 27b in the KSHV life cycle.

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Engineered small extracellular vesicles as a novel platform to suppress human oncovirus-associated cancers
Iman Owliaee, Mehran khaledian, Armin Khaghani Boroujeni, Ali Shojaeian
Infectious Agents and Cancer.2023;[Epub] CrossRef
HMGB1, a potential regulator of tumor microenvironment in KSHV-infected endothelial cells
Myung-Ju Lee, Joohee Park, Seokjoo Choi, Seung-Min Yoo, Changhoon Park, Hong Seok Kim, Myung-Shin Lee
Frontiers in Microbiology.2023;[Epub] CrossRef
Alpha-2-macroglobulin as a novel diagnostic biomarker for human bladder cancer in urinary extracellular vesicles
Jisu Lee, Hyun Sik Park, Seung Ro Han, Yun Hee Kang, Ji Young Mun, Dong Wook Shin, Hyun-Woo Oh, Yoon-Kyoung Cho, Myung-Shin Lee, Jinsung Park
Frontiers in Oncology.2022;[Epub] CrossRef
Long non-coding RNAs in Sus scrofa ileum under starvation stress
Shu Wang, Yi Jia Ma, Yong Shi Li, Xu Sheng Ge, Chang Lu, Chun Bo Cai, Yang Yang, Yan Zhao, Guo Ming Liang, Xiao Hong Guo, Guo Qing Cao, Bu Gao Li, Peng Fei Gao
Animal Bioscience.2022; 35(7): 975. CrossRef

Analysis of a bac operon-silenced strain suggests pleiotropic effects of bacilysin in Bacillus subtilis: Ozan Ertekin , Meltem Kutnu , Aslı Aras Ta&# , Mustafa Demir , Ayten Yazgan Karata&# , Gülay Özcengiz; J. Microbiol. 2020;58(4):297-313. Published online January 28, 2020; DOI: https://doi.org/10.1007/s12275-020-9064-0

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Abstract

Bacilysin, as the simplest peptide antibiotic made up of only L-alanine and L-anticapsin, is produced and excreted by Bacillus subtilis under the control of quorum sensing. We analyzed bacilysin-nonproducing strain OGU1 which was obtained by bacA-targeted pMutin T3 insertion into the parental strain genome resulting in a genomic organization (bacA􍿁::lacZ::erm::bacABCDEF) to form an IPTG-inducible bac operon. Although IPTG induction provided 3- to 5-fold increment in the transcription of bac operon genes, no bacilysin activity was detectable in bioassays and inability of the OGU1 to form bacilysin was confirmed by UPLC-mass spectrometry analysis. Phenotypic analyses revealed the deficiencies in OGU1 with respect to colony pigmentation, spore coat proteins, spore resistance and germination, which could be rescued by external addition of bacilysin concentrate into its cultures. 2DE MALDI-TOF/MS and nanoLC-MS/MS were used as complementary approaches to compare cytosolic proteomes of OGU1. 2-DE identified 159 differentially expressed proteins corresponding to 121 distinct ORFs. In nanoLCMS/ MS, 76 proteins were differentially expressed in OGU1. Quantitative transcript analyses of selected genes validated the proteomic findings. Overall, the results pointed to the impact of bacilysin on expression of certain proteins of sporulation and morphogenesis; the members of mother cell compartment- specific σE and σK regulons in particular, quorum sensing and two component-global regulatory systems, peptide transport, stress response as well as CodY- and ScoCregulated proteins.

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Biocontrol Ability of Strain Bacillus amyloliquefaciens SQ-2 against Table Grape Rot Caused by Aspergillus tubingensis
Suran Li, Shuangshuang Dai, Lei Huang, Yumeng Cui, Ming Ying
Journal of Agricultural and Food Chemistry.2024; 72(44): 24374. CrossRef
Isolation and identification of a novel Bacillus velezensis strain JIN4 and its potential for biocontrol of kiwifruit bacterial canker caused by Pseudomonas syringae pv. actinidiae
Xin Zhao, Yang Zhai, Lin Wei, Fei Xia, Yuanru Yang, Yongjian Yi, Hongying Wang, Caisheng Qiu, Feng Wang, Liangbin Zeng
Frontiers in Plant Science.2024;[Epub] CrossRef
Signatures of kin selection in a natural population of the bacteria Bacillus subtilis
Laurence J Belcher, Anna E Dewar, Chunhui Hao, Melanie Ghoul, Stuart A West
Evolution Letters.2023; 7(5): 315. CrossRef
Comparative biological network analysis for differentially expressed proteins as a function of bacilysin biosynthesis in Bacillus subtilis
Meltem Kutnu, Elif Tekin İşlerel, Nurcan Tunçbağ, Gülay Özcengiz
Integrative Biology.2022; 14(5): 99. CrossRef
Probiotic effects of the Bacillus velezensis GY65 strain in the mandarin fish, Siniperca chuatsi
Jiachuan Wang, Defeng Zhang, Yajun Wang, Zhijun Liu, Lijuan Liu, Cunbin Shi
Aquaculture Reports.2021; 21: 100902. CrossRef
Bacilysin within the Bacillus subtilis group: gene prevalence versus antagonistic activity against Gram-negative foodborne pathogens
Catherine Nannan, Huong Quynh Vu, Annika Gillis, Simon Caulier, Thuy Thanh Thi Nguyen, Jacques Mahillon
Journal of Biotechnology.2021; 327: 28. CrossRef
Impact of spatial proximity on territoriality among human skin bacteria
Jhonatan A. Hernandez-Valdes, Lu Zhou, Marcel P. de Vries, Oscar P. Kuipers
npj Biofilms and Microbiomes.2020;[Epub] CrossRef

Diagnosis and molecular characteristics of human infections caused by Anaplasma phagocytophilum in South Korea: Seung Hun Lee , Sungdo Park , Yeong Seon Lee , Hae Kyung Lee , Seon Do Hwang; J. Microbiol. 2018;56(11):847-853. Published online October 24, 2018; DOI: https://doi.org/10.1007/s12275-018-8385-8

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Abstract

Human granulocytic anaplasmosis (HGA) is a tick borne infection caused by Anaplasma phagocytophilum. HGA cases in South Korea have been identified since the first report in 2014. In this study, we investigated the serological response in 594 clinical samples of patients with acute febrile illness and molecular characteristics of A. phagocytophilum clinical isolates obtained from HGA patients. In serological test for A. phagocytophilum, 7.91% (47/594 cases) were positive for IgG and Ig M and 13 of 47 cases showed seroconversion. In the detection rate of the 16S rRNA, msp2(p44), and ankA, genes were showed 3.68% (14/380 cases) for A. phagocytophilum- specific 16S rRNA gene. Phylogenetic analysis of three clinical isolates demonstrated high sequence similarity (98.58– 100%) with A. phagocytophilum 16S rRNA sequences identified from public databases. Analysis of the msp2(p44) gene showed highly variable similarity rates (7.24–98.85%) even within isolated countries and host ranges. These results provide clues into the bacterial characterization of A. phagocytophilum originating from Korean patients, providing useful guidance for treatment and improving clinical outcomes.

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Human granulocytotropic anaplasmosis—A systematic review and analysis of the literature
Sophie Schudel, Larissa Gygax, Christian Kositz, Esther Kuenzli, Andreas Neumayr, Ana LTO Nascimento
PLOS Neglected Tropical Diseases.2024; 18(8): e0012313. CrossRef
Molecular and serological detection of Anaplasma spp. in small ruminants in an area of Cerrado Biome in northeastern Brazil
Ellainy Maria Conceição Silva, Ingrid Carolinne Lopes Marques, Victória Valente Califre de Mello, Renan Bressianini do Amaral, Luiz Ricardo Gonçalves, Maria do Socorro Costa Oliveira Braga, Larissa Sarmento dos Santos Ribeiro, Rosangela Zacarias Machado,
Ticks and Tick-borne Diseases.2024; 15(1): 102254. CrossRef
Global status of Anaplasma phagocytophilum infections in human population: A 50-year (1970–2020) meta-analysis
Solomon Ngutor Karshima, Musa Isiyaku Ahmed, Kaltume Mamman Mohammed, Victoria Adamu Pam
Journal of Vector Borne Diseases.2023; 60(3): 265. CrossRef
Human granulocytic anaplasmosis in a Single University Hospital in the Republic of Korea
Da Young Kim, Jun-Won Seo, Na Ra Yun, Choon-Mee Kim, Dong-Min Kim
Scientific Reports.2021;[Epub] CrossRef
Development of a duplex PCR assay for detecting Theileria luwenshuni and Anaplasma phagocytophilum in sheep and goats
Yaqun Yan, Yanyan Cui, Shanshan Zhao, Jichun Jing, Ke Shi, Fuchun Jian, Longxian Zhang, Rongjun Wang, Kunlun Wang, Yongchun Zhou, Changshen Ning
Experimental and Applied Acarology.2021; 85(2-4): 319. CrossRef
The Novel Zoonotic Pathogen, Anaplasma capra, Infects Human Erythrocytes, HL-60, and TF-1 Cells In Vitro
Yongshuai Peng, Chenyang Lu, Yaqun Yan, Jinxing Song, Zhiyang Pei, Pihong Gong, Rongjun Wang, Longxian Zhang, Fuchun Jian, Changshen Ning
Pathogens.2021; 10(5): 600. CrossRef
Parasitic and Vector-Borne Infections in HIV-Positive Patients in Slovakia—Evidence of an Unexpectedly High Occurrence of Anaplasma phagocytophilum
Katarína Šimeková, Ľubomír Soják, Bronislava Víchová, Lenka Balogová, Júlia Jarošová, Daniela Antolová
Pathogens.2021; 10(12): 1557. CrossRef
Are other tick-borne infections overlooked in patients investigated for Lyme neuroborreliosis? A large retrospective study from South-eastern Sweden
Paula Gyllemark, Peter Wilhelmsson, Camilla Elm, Dieuwertje Hoornstra, Joppe W. Hovius, Marcus Johansson, Ivar Tjernberg, Per-Eric Lindgren, Anna J. Henningsson, Johanna Sjöwall
Ticks and Tick-borne Diseases.2021; 12(5): 101759. CrossRef
A Multiplex PCR Detection Assay for the Identification of Clinically Relevant Anaplasma Species in Field Blood Samples
Yongshuai Peng, Shanshan Zhao, Kunlun Wang, Jinxing Song, Yaqun Yan, Yongchun Zhou, Ke Shi, Fuchun Jian, Rongjun Wang, Longxian Zhang, Changshen Ning
Frontiers in Microbiology.2020;[Epub] CrossRef
Human granulocytic anaplasmosis in Kinmen, an offshore island of Taiwan
Kun-Hsien Tsai, Lo-Hsuan Chung, Chia-Hao Chien, Yu-Jung Tung, Hsin-Yi Wei, Tsai-Ying Yen, Pei-Yun Shu, Hsi-Chieh Wang, José Reck
PLOS Neglected Tropical Diseases.2019; 13(9): e0007728. CrossRef
Co-Infection of Scrub Typhus and Human Granulocytic Anaplasmosis in Korea, 2006
Jeong-Han Kim, Chang-Seop Lee, Chisook Moon, Yee Gyung Kwak, Baek-Nam Kim, Eu Suk Kim, Jae Myung Kang, Wan Beom Park, Myoung-don Oh, Sang-Won Park
Journal of Korean Medical Science.2019;[Epub] CrossRef

Microbial diversity in the rumen, reticulum, omasum, and abomasum of yak on a rapid fattening regime in an agro-pastoral transition zone: Dan Xue , Huai Chen , Xiaolin Luo , Jiuqiang Guan , Yixin He , Xinquan Zhao; J. Microbiol. 2018;56(10):734-743. Published online August 22, 2018; DOI: https://doi.org/10.1007/s12275-018-8133-0

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Abstract

The ruminant digestive system harbors a complex gut microbiome, which is poorly understood in the case of the four stomach compartments of yak. High-throughput sequencing and quantitative PCR were used to analyse microbial communities in the rumen, reticulum, omasum, and abomasum of six domesticated yak. The diversity of prokaryotes was higher in reticulum and omasum than in rumen and abomasum. Bacteroidetes predominated in the four stomach compartments, with abundance gradually decreasing in the trend rumen > reticulum > omasum > abomasum. Microorganism composition was different among the four compartments, all of which contained high levels of bacteria, methanogens, protozoa and anaerobic fungi. Some prokaryotic genera were associated with volatile fatty acids and pH. This study provides the first insights into the microorganism composition of four stomach compartments in yak, and may provide a foundation for future studies in this area.

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Pengujian Potensi Cairan Omasum Sapi untuk Ketercernaan Tiga Jenis Bahan Organik sebagai Sumber Bioetanol Generasi Ke-2
Endah Dwi Hastuti, Riska Amalia, Munifatul Izzati
Buletin Anatomi dan Fisiologi.2024; 9(1): 75. CrossRef
Effects of Two Feeding Patterns on Growth Performance, Rumen Fermentation Parameters, and Bacterial Community Composition in Yak Calves
Qin Li, Yan Tu, Tao Ma, Kai Cui, Jianxin Zhang, Qiyu Diao, Yanliang Bi
Microorganisms.2023; 11(3): 576. CrossRef
Transcriptome profiling in rumen, reticulum, omasum, and abomasum tissues during the developmental transition of pre-ruminant to the ruminant in yaks
Yili Liu, Qi Min, Jiao Tang, Lu Yang, Xinxin Meng, Tao Peng, Mingfeng Jiang
Frontiers in Veterinary Science.2023;[Epub] CrossRef
Nutrient availability of roughages in isocaloric and isonitrogenous diets alters the bacterial networks in the whole gastrointestinal tract of Hu sheep
Yuqi Li, Jian Gao, Yihan Xue, Ruolin Sun, Xiaoni Sun, Zhanying Sun, Suozhu Liu, Zhankun Tan, Weiyun Zhu, Yanfen Cheng
BMC Microbiology.2023;[Epub] CrossRef
Review: Effect of Experimental Diets on the Microbiome of Productive Animals
Rodrigo Huaiquipán, John Quiñones, Rommy Díaz, Carla Velásquez, Gastón Sepúlveda, Lidiana Velázquez, Erwin A. Paz, Daniela Tapia, David Cancino, Néstor Sepúlveda
Microorganisms.2023; 11(9): 2219. CrossRef
“The Yak”—A remarkable animal living in a harsh environment: An overview of its feeding, growth, production performance, and contribution to food security
Ali Mujtaba Shah, Iqra Bano, Izhar Hyder Qazi, Maharach Matra, Metha Wanapat
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Effects of Two Different Straw Pellets on Yak Growth Performance and Ruminal Microbiota during Cold Season
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Wen Qin, Pengfei Song, Jirong Li, Jiuxiang Xie, Shoudong Zhang
Sustainability.2022; 14(16): 10263. CrossRef
Dynamic changes in the yak rumen eukaryotic community and metabolome characteristics in response to feed type
Xiaojing Cui, Yue Liu, Hao Wu, Qingxiang Meng, Shujie Liu, Shatuo Chai, Lizhuang Hao, Zhenming Zhou
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Multi-Omics Analysis Reveals a Dependent Relationship Between Rumen Bacteria and Diet of Grass- and Grain-Fed Yaks
Chenchen Xu, Wenwen Liu, Baozhong Sun, Songshan Zhang, Shou Zhang, Yuanli Yang, Yuanhua Lei, Lan Chang, Peng Xie, Huayi Suo
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Animal Feed Science and Technology.2021; 277: 114972. CrossRef
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Brisket Disease Is Associated with Lower Volatile Fatty Acid Production and Altered Rumen Microbiome in Holstein Heifers
Naren Gaowa, Kevin Panke-Buisse, Shuxiang Wang, Haibo Wang, Zhijun Cao, Yajing Wang, Kun Yao, Shengli Li
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A Mixed Phytogenic Modulates the Rumen Bacteria Composition and Milk Fatty Acid Profile of Water Buffaloes
Faiz-ul Hassan, Hossam M. Ebeid, Zhenhua Tang, Mengwei Li, Lijuan Peng, Kaiping Peng, Xin Liang, Chengjian Yang
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Comparing the Bacterial Community in the Gastrointestinal Tracts Between Growth-Retarded and Normal Yaks on the Qinghai–Tibetan Plateau
Jian Ma, Yixiao Zhu, Zhisheng Wang, Xiong Yu, Rui Hu, Xueying Wang, Guang Cao, Huawei Zou, Ali Mujtaba Shah, Quanhui Peng, Bai Xue, Lizhi Wang, Suonan Zhao, Xiangying Kong
Frontiers in Microbiology.2020;[Epub] CrossRef
Bacterial communities in the solid, liquid, dorsal, and ventral epithelium fractions of yak (Bos grunniens) rumen
Qingmiao Ren, Huazhe Si, Xiaoting Yan, Chang Liu, Luming Ding, Ruijun Long, Zhipeng Li, Qiang Qiu
MicrobiologyOpen.2020;[Epub] CrossRef
Interactions Between Rumen Microbes, VFAs, and Host Genes Regulate Nutrient Absorption and Epithelial Barrier Function During Cold Season Nutritional Stress in Tibetan Sheep
Xiu Liu, Yuzhu Sha, Renqing Dingkao, Wei Zhang, Weibing Lv, Hong Wei, Hao Shi, Jiang Hu, Jiqing Wang, Shaobin Li, Zhiyun Hao, Yuzhu Luo
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Yak rumen microbial diversity at different forage growth stages of an alpine meadow on the Qinghai-Tibet Plateau
Li Ma, Shixiao Xu, Hongjin Liu, Tianwei Xu, Linyong Hu, Na Zhao, Xueping Han, Xiaoling Zhang
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Comparing the Microbial Community in Four Stomach of Dairy Cattle, Yellow Cattle and Three Yak Herds in Qinghai-Tibetan Plateau
Jinwei Xin, Zhixin Chai, Chengfu Zhang, Qiang Zhang, Yong Zhu, Hanwen Cao, Jincheng Zhong, Qiumei Ji
Frontiers in Microbiology.2019;[Epub] CrossRef
Dynamic Alterations in Yak Rumen Bacteria Community and Metabolome Characteristics in Response to Feed Type
Chang Liu, Hao Wu, Shujie Liu, Shatuo Chai, Qingxiang Meng, Zhenming Zhou
Frontiers in Microbiology.2019;[Epub] CrossRef

Development and validation of multiplex real-time PCR assays for rapid detection of cytomegalovirus, Epstein-Barr virus, and polyomavirus BK in whole blood from transplant candidates: Kyung-Ah Hwang , Ji Hoon Ahn , Jae-Hwan Nam; J. Microbiol. 2018;56(8):593-599. Published online July 25, 2018; DOI: https://doi.org/10.1007/s12275-018-8273-2

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Abstract

Transplant recipients are more susceptible to bacterial and viral infections. Cytomegalovirus (CMV), Epstein-Barr virus (EBV), and polyomavirus BK (BK) are risk factors for graft dysfunction. All three of them are latent viruses that can cause serious disease in immunocompromised patients. Mainly qualitative PCR tests are required for diagnosis and quantitative monitoring, which are used to follow the response to transplantation. We developed a multiplex real-time PCR (qPCR)
method
to detect these viruses during blood screenings of transplant recipients. We also validated analytical and clinical performance tests using the developed multiplex qPCR. The limit of detection (LOD) was 100, 125, and 183 copies/ml for CMV, EBV, and BK, respectively. These results had high linearity (R2 = 0.997) and reproducibility (CV range, 0.95– 2.38%, 0.52–3.32%, and 0.31–2.45%, respectively). Among 183 samples, we detected 8 samples that were positive for CMV, while only 6 were positive for EBV, and 3 were positive for BK. Therefore, the viral infection prevalence in transplant candidates was 4.40% for CMV, 3.29% for EBV, and 1.64% for BK. This multiplex qPCR method should be used widely for diagnosing and monitoring latent viral infections in transplant recipients.

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Diversity of lactic acid bacteria from Miang, a traditional fermented tea leaf in northern Thailand and their tannin-tolerant ability in tea extract: Siriporn Chaikaew , Sasitorn Baipong , Teruo Sone , Apinun Kanpiengjai , Naradorn Chui-chai , Kozo Asano , Chartchai Khanongnuch; J. Microbiol. 2017;55(9):720-729. Published online September 2, 2017; DOI: https://doi.org/10.1007/s12275-017-7195-8

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Abstract

The microbiota of lactic acid bacteria (LAB) in thirty-five samples of Miang, a traditional fermented tea leaf product, collected from twenty-two different regions of eight provinces in upper northern Thailand was revealed through the culture-dependent technique. A total of 311 presumptive LAB strains were isolated and subjected to clustering analysis based on repetitive genomic element-PCR (rep-PCR) fingerprinting profiles. The majority of the strains belonged to the Lactobacillus genera with an overwhelming predominance of the Lb. plantarum group. Further studies of species-specific PCR showed that 201 of 252 isolates in the Lb. plantarum group were Lb. plantarum which were thus considered as the predominant LAB in Miang, while the other 51 isolates belonged to Lb. pentosus. In contrast to Lb. plantarum, there is a lack of information on the tannase gene and the tea tannin-tolerant ability of Lb. pentosus. Of the 51 Lb. pentosus isolates, 33 were found to harbor the genes encoding tannase and shared 93-99% amino acid identity with tannase obtained from Lb. pentosus ATCC 8041T. Among 33 tannase gene-positive isolates, 23 isolates exhibited high tannin- tolerant capabilities when cultivated on de Man Rogosa and Sharpe agar-containing bromocresol purple (0.02 g/L, MRS-BCP) supplemented with 20% (v/v) crude tea extract, which corresponded to 2.5% (w/v) tannins. These Lb. pentosus isolates with high tannin-tolerant capacity are expected to be the high potential strains for functional tannase production involved in Miang fermentation as they will bring about certain benefits and could be used to improve the fermentation of tea products.

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Performance of nested multiplex PCR assay targeting MTP40 and IS6110 gene sequences for the diagnosis of tubercular lymphadenitis: Pallavi Sinha , Pradyot Prakash , Shashikant C.U. Patne , Shampa Anupurba , Sweety Gupta , G. N. Srivastava; J. Microbiol. 2017;55(1):63-67. Published online December 30, 2016; DOI: https://doi.org/10.1007/s12275-017-6127-y

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Abstract

The conventional methods for diagnosis of tubercular lymphadenitis (TBLN) such as - fine needle aspiration cytology, Ziehl-Neelsen staining and culture have limitations of low sensitivity and/or specificity. So, it becomes essential to develop a rapid, sensitive, and specific method for an early diagnosis of TBLN. Therefore, the present study was conducted to evaluate nested multiplex polymerase chain reaction (nMPCR) targeting MTP40 and IS6110 gene sequences of Mycobacterium tuberculosis and Mycobacterium tuberculosis complex, respectively in 48 successive patients of TBLN and 20 random patients with non-tubercular lymph node lesions. Out of the 48 cases of TBLN, 14 (29.2%) were found to be positive by Ziehl-Neelsen staining, 15 (31.2%) were positive by culture and 43 (89.6%) cases were positive after first round of PCR while 48 (100%) cases were positive by nMPCR assay. The sensitivity and specificity of nMPCR was found to be 100% for the diagnosis of TBLN. The results thus obtained indicate that nMPCR assay is a highly sensitive and specific tool for the diagnosis of TBLN.

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Intestinal Lactobacillus community structure and its correlation with diet of Southern Chinese elderly subjects§: Yuanyuan Pan , Da-Wen Sun , Quanyang Li; J. Microbiol. 2016;54(9):594-601. Published online August 31, 2016; DOI: https://doi.org/10.1007/s12275-016-6131-7

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Abstract

This study aimed to investigate the relationship between the intestinal Lactobacillus species and diet of elderly subjects in a longevity area in Southern China. Healthy elderly subjects ranging from 80 to 99 years old were respectively selected from the regions of Bama and Nanning, Guangxi, China. The nested polymerase chain reaction and denaturing gradient gel electrophoresis (PCR-DGGE) technology was used to analyze the intestinal Lactobacillus community structure.
Results
showed that Weissella confusa, L. mucosae, L. crispatus, L. salivarius, and L. delbrueckii were the representative Lactobacillus of elderly subjects. Among them, L. crispatus and L. delbrueckii were the dominant Lactobacillus of all species. In comparison to Nanning elderly subjects, the detection frequencies of W. confusa and L. salivarius were significantly increased in Bama elderly subjects (P < 0.01), whereas L. mucosae was significantly decreased (P < 0.01). Interestingly, it was also found that there were 4 kinds of representative Lactobacillus, which were significantly correlated with dietary fiber. W. confusa (P < 0.01) and L. salivarius (P < 0.05) were significantly positively correlated with the intake of dietary fiber, while L. mucosae (P < 0.01) and L. crispatus (P < 0.05) were significantly negatively correlated with the intake of dietary fiber, respectively. Results confirmed that different diets had obvious effects on the intestinal Lactobacillus community structure of elderly subjects in Southern China, which may provide a certain theoretical basis for the elderly’s healthy food strategic design and probiotics product development.

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Metabolomic and Transcriptomic Analyses Provide New Insights into Health-Promoting Metabolites from Cannabis Seeds Growing in the Bama Region of China
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Inverse PCR for subtyping of Acinetobacter baumannii carrying ISAba1: Shukho Kim , Yun-Ju Park , Jungmin Kim; J. Microbiol. 2016;54(5):376-380. Published online April 20, 2016; DOI: https://doi.org/10.1007/s12275-016-6038-3

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Abstract

Acinetobacter baumannii has been prevalent in nosocomial infections, often causing outbreaks in intensive care units. ISAba1 is an insertion sequence that has been identified only in A. baumannii and its copy number varies among strains. It has been reported that ISAba1 provides a promoter for blaOXA-51-like, blaOXA-23-like, and blaampC, which are associated with the resistance of A. baumannii to carbapenems and cephalosporins. The main purpose of this study was to develop a novel inverse PCR method capable of typing A. baumannii strains. The method involves three major steps: cutting of genomic DNA with a restriction enzyme, ligation, and PCR. In the first step, bacterial genomic DNA was digested with DpnI. In the second step, the digested genomic DNAs were ligated to form intramolecular circular DNAs. In the last step, the ligated circular DNAs were amplified by PCR with primers specific for ISAba1 and the amplified PCR products were electrophoresed. Twenty-two clinical isolates of A. baumannii were used for the evaluation of the inverse PCR (iPCR) typing method. Dendrogram analysis revealed two major clusters, similar to pulsed-field gel electrophoresis (PFGE) results. Three ISAba1-associated genes – blaampC, blaOXA-66-like, and csuD – were amplified and detected in the clinical isolates. This novel iPCR typing method is comparable to PFGE in its ability to discriminate A. baumannii strains, and is a promising molecular epidemiological tool for investigating A. baumannii carrying ISAba1.

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Research Support, Non-U.S. Gov'ts

The hrp pathogenicity island of Pseudomonas syringae pv. tomato DC3000 is induced by plant phenolic acids: Jun Seung Lee , Hye Ryun Ryu , Ji Young Cha , Hyung Suk Baik; J. Microbiol. 2015;53(10):725-731. Published online October 2, 2015; DOI: https://doi.org/10.1007/s12275-015-5256-4

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Abstract

Plants produce a wide array of antimicrobial compounds, such as phenolic compounds, to combat microbial pathogens. The hrp PAI is one of the major virulence factors in the plant pathogen, Pseudomonas syringae. A major role of hrp PAI is to disable the plant defense system during bacterial invasion. We examined the influence of phenolic compounds on hrp PAI gene expression at low and high concentrations. There was approximately 2.5 times more hrpA and hrpZ mRNA in PtoDC3000 that was grown in minimal media (MM) supplemented with 10 μM of ortho-coumaric acid than in PtoDC3000 grown in MM alone. On the other hand, a significantly lower amount of hrpA mRNA was observed in bacteria grown in MM supplemented with a high concentration of phenolic compounds. To determine the regulation pathway for hrp PAI gene expression, we performed qRTPCR using gacS, gacA, and hrpS deletion mutants.

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Carola Biancalani, Matteo Cerboneschi, Francesco Tadini-Buoninsegni, Margherita Campo, Arianna Scardigli, Annalisa Romani, Stefania Tegli, Boris Alexander Vinatzer
PLOS ONE.2016; 11(9): e0163357. CrossRef

Performance of PCR-reverse blot hybridization assay for detection of rifampicin-resistant Mycobacterium leprae: Hye-young Wang , Hyunjung Kim , Yeun Kim , Hyeeun Bang , Jong-Pill Kim , Joo Hwan Hwang , Sang-Nae Cho , Tae Ue Kim , Hyeyoung Lee; J. Microbiol. 2015;53(10):686-693. Published online October 2, 2015; DOI: https://doi.org/10.1007/s12275-015-5057-9

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Abstract

Drug resistance in Mycobacterium leprae is a significant problem in countries where leprosy is endemic. A sensitive, specific, and high-throughput reverse blot hybridization assay (REBA) for the detection of genotypic resistance to rifampicin (RIF) was designed and evaluated. It has been shown that resistance to RIF in M. leprae involves mutations in the rpoB gene encoding the β-subunit of the RNA polymerase. The PCR-REBA simultaneously detects both 6 wild-type regions and 5 different mutations (507AGC, 513GTG, 516TAT, 531ATG, and 531TTC) including the most prevalent mutations at positions 507 and 531. Thirty-one clinical isolates provided by Korea Institute of Hansen’s Disease were analyzed by PCR-REBA with RIF resistance of rpoB gene. As a
result
, missense mutations at codons 507 AGC and 531ATG with 2-nucleotide substitutions were found in one sample, and a missense mutation at codon 516 TAT and ΔWT6 (deletion of 530-534) was found in another sample. These cases were confirmed by DNA sequence analysis. This rapid, simple, and highly sensitive assay provides a practical alternative to sequencing for genotypic evaluation of RIF resistance in M. leprae.

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Prediction of Y haplogroup by polymerase chain reaction-reverse blot hybridization assay
Sehee Oh, Jungho Kim, Sunyoung Park, Seoyong Kim, Kyungmyung Lee, Yang-Han Lee, Si-Keun Lim, Hyeyoung Lee
Genes & Genomics.2019; 41(3): 297. CrossRef

Pregnancy - associated human listeriosis: Virulence and genotypic analysis of Listeria monocytogenes from clinical samples: Dharmendra Kumar Soni , Durg Vijai Singh , Suresh Kumar Dubey; J. Microbiol. 2015;53(9):653-660. Published online August 1, 2015; DOI: https://doi.org/10.1007/s12275-015-5243-9

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Abstract

Listeria monocytogenes, a life-threatening pathogen, poses severe risk during pregnancy, may cause abortion, fetal death or neonatal morbidity in terms of septicemia and meningitis. The present study aimed at characterizing L. monocytogenes isolated from pregnant women based on serotyping, antibiotic susceptibility, virulence genes, in vivo pathogenicity test and ERIC- and REP-PCR fingerprint analyses. The results revealed that out of 3700 human clinical samples, a total of 30 (0.81%) isolates [12 (0.80%) from placental bit (1500), 18 (0.81%) from vaginal swab (2200)] were positive for L. monocytogenes. All the isolates belonged to serogroup 4b, and were + ve for virulence genes tested i.e. inlA, inlC, inlJ, plcA, prfA, actA, hlyA, and iap. Based on the mice inoculation tests, 20 isolates showed 100% and 4 isolates 60% relative virulence while 6 isolates were non-pathogenic. Moreover, 2 and 10 isolates were resistant to ciprofloxacin and cefoxitin, respectively, while the rest susceptible to other antibiotics used in this study. ERIC- and REP-PCR collectively depicted that the isolates from placental bit and vaginal swab had distinct PCR fingerprints except a few isolates with identical patterns. This study demonstrates prevalence of pathogenic strains mostly resistant to cefoxitin and/or ciprofloxacin. The results indicate the importance of isolating and characterizing the pathogen from human clinical samples as the pre-requisite for accurate epidemiological investigations.

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