Journal of Microbiology

Journal Articles

Tubulysin Production by the Dead Cells of Archangium gephyra KYC5002: Seohui Park, Chaehyeon Park, Yujin Ka, Kyungyun Cho; J. Microbiol. 2024;62(6):463-471. Published online June 13, 2024; DOI: https://doi.org/10.1007/s12275-024-00130-3

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Abstract: Archangium gephyra KYC5002 produces tubulysins during the death phase. In this study, we aimed to determine whether dead cells produce tubulysins. Cells were cultured for three days until the verge of the death phase, disrupted via ultrasonication, incubated for 2 h, and examined for tubulysin production. Non-disrupted cells produced 0.14 mg/L of tubulysin A and 0.11 mg/L of tubulysin B. Notably, tubulysin A production was increased by 4.4-fold to 0.62 mg/L and that of tubulysin B was increased by 6.7-fold to 0.74 mg/L in the disrupted cells. The same increase in tubulysin production was observed when the cells were killed by adding hydrogen peroxide. However, when the enzymes were inactivated via heat treatment of the cultures at 65 °C for 30 min, no significant increase in tubulysin production due to cell death was observed. Reverse transcription-quantitative polymerase chain reaction analysis of tubB mRNA revealed that the expression levels of tubulysin biosynthetic enzyme genes increased during the death phase compared to those during the vegetative growth phase. Our findings suggest that A. gephyra produces biosynthetic enzymes and subsequently uses them for tubulysin production in the cell death phase or during cell lysis by predators.

Isolation and characterization of tick-borne Roseomonas haemaphysalidis sp. nov. and rodent-borne Roseomonas marmotae sp. nov.: Wentao Zhu , Juan Zhou , Shan Lu , Jing Yang , Xin-He Lai , Dong Jin , Ji Pu , Yuyuan Huang , Liyun Liu , Zhenjun Li , Jianguo Xu; J. Microbiol. 2022;60(2):137-146. Published online November 26, 2021; DOI: https://doi.org/10.1007/s12275-022-1428-1

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Four novel Gram-negative, mesophilic, aerobic, motile, and cocci-shaped strains were isolated from tick samples (strains 546T and 573) and respiratory tracts of marmots (strains 1318T and 1311). The 16S rRNA gene sequencing revealed that strains 546T and 573 were 97.8% identical to Roseomonas wenyumeiae Z23T, whereas strains 1311 and 1318T were 98.3% identical to Roseomonas ludipueritiae DSM 14915T. In addition, a 98.0% identity was observed between strains 546T and 1318T. Phylogenetic and phylogenomic analyses revealed that strains 546T and 573 clustered with R. wenyumeiae Z23T, whereas strains 1311 and 1318T grouped with R. ludipueritiae DSM 14915T. The average nucleotide identity between our isolates and members of the genus Roseomonas was below 95%. The genomic G+C content of strains 546T and 1318T was 70.9% and 69.3%, respectively. Diphosphatidylglycerol (DPG) and phosphatidylethanolamine (PE) were the major polar lipids, with Q-10 as the predominant respiratory quinone. According to all genotypic, phenotypic, phylogenetic, and phylogenomic analyses, the four strains represent two novel species of the genus Roseomonas, for which the names Roseomonas haemaphysalidis sp. nov. and Roseomonas marmotae sp. nov. are proposed, with 546T (= GDMCC 1.1780T = JCM 34187T) and 1318T (= GDMCC 1.1781T = JCM 34188T) as type strains, respectively.

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Genomic epidemiology and antimicrobial resistance of Morganella clinical isolates between 2016 and 2023
Wentao Zhu, Qian Liu, Jinlv Liu, Yaqi Wang, Hong Shen, Ming Wei, Ji Pu, Li Gu, Jing Yang
Frontiers in Cellular and Infection Microbiology.2025;[Epub] CrossRef
Roseomonas populi sp. nov., an acetate-degrading bacteria isolated from the stem of Populus tomentosa
Yao Cheng, Wen Zhu, Shuo Han, Jingjing Yang, Guanqi Wu, Guozhu Zhao, Xiangwei He
Antonie van Leeuwenhoek.2024;[Epub] CrossRef
Description of Corynebacterium poyangense sp. nov., isolated from the feces of the greater white-fronted geese (Anser albifrons)
Qian Liu, Guoying Fan, Kui Wu, Xiangning Bai, Xi Yang, Wentao Song, Shengen Chen, Yanwen Xiong, Haiying Chen
Journal of Microbiology.2022; 60(7): 668. CrossRef
Canibacter zhuwentaonis sp. nov. and Canibacter zhoujuaniae sp. nov., isolated from Marmota himalayana
Xianglian Lv, Yinmei Li, Yanpeng Cheng, Xin-He Lai, Jing Yang, Shan Lu, Gui Zhang, Caixin Yang, Dong Jin, Liyun Liu, Jianguo Xu
International Journal of Systematic and Evolutionary Microbiology .2022;[Epub] CrossRef

Effects of multi-species probiotic supplementation on alcohol metabolism in rats: Tae-Joong Lim , Sanghyun Lim , Jong Hyun Yoon , Myung Jun Chung; J. Microbiol. 2021;59(4):417-425. Published online March 29, 2021; DOI: https://doi.org/10.1007/s12275-021-0573-2

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Abstract

Probiotics are known to protect against liver damage induced by the alcohol and acetaldehyde accumulation associated with alcohol intake. However, there have been few studies of the direct effect of probiotics on alcohol metabolism, and the types of probiotics that were previously analyzed were few in number. Here, we investigated the effects of 19 probiotic species on alcohol and acetaldehyde metabolism. Four probiotic species that had a relatively high tolerance to alcohol and metabolized alcohol and acetaldehyde effectively were identified: Lactobacillus gasseri CBT LGA1, Lactobacillus casei CBT LC5, Bifidobacterium lactis CBT BL3, and Bifidobacterium breve CBT BR3. These species also demonstrated high mRNA expression of alcohol and acetaldehyde dehydrogenases. Pro- AP4, a mixture of these four probiotics species and excipient, was then administered to rats for 2 weeks in advance of acute alcohol administration. The serum alcohol and acetaldehyde concentrations were significantly lower in the ProAP4-administered group than in the control and excipient groups. Thus, the administration of ProAP4, containing four probiotic species, quickly lowers blood alcohol and acetaldehyde concentrations in an alcohol and acetaldehyde dehydrogenasedependent manner. Furthermore, the serum alanine aminotransferase activity, which is indicative of liver damage, was significantly lower in the ProAP4 group than in the control group. The present findings suggest that ProAP4 may be an effective means of limiting alcohol-induced liver damage.

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Regulation of Alcohol and Acetaldehyde Metabolism by a Mixture of Lactobacillus and Bifidobacterium Species in Human
Su-Jin Jung, Ji-Hyun Hwang, Eun-Ock Park, Seung-Ok Lee, Yun-Jo Chung, Myung-Jun Chung, Sanghyun Lim, Tae-Joong Lim, Yunhi Ha, Byung-Hyun Park, Soo-Wan Chae
Nutrients.2021; 13(6): 1875. CrossRef

Production and characterization of melanin pigments derived from Amorphotheca resinae: Jeong-Joo Oh , Jee Young Kim , Sun Lul Kwon , Dong-Hyeok Hwang , Yoon-E Choi , Gyu-Hyeok Kim; J. Microbiol. 2020;58(8):648-656. Published online May 18, 2020; DOI: https://doi.org/10.1007/s12275-020-0054-z

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Abstract

As melanin has emerged as functional pigment with cosmetic, health and food applications, the demand for the pigments is expected to increase. However, the conventional sources (e.g. mushroom, hair, and wool) of melanin production entail pigments inside the substrates which requires the costly extraction procedures, leading to inappropriate scalable production. In this study, we screened 102 of fungal isolates for their ability to produce melanin in the supernatant and selected the only Amorphotheca resinae as a promising candidate. In the peptone yeast extract glucose broth, A. resinae produced the melanin rapidly during the autolysis phase of growth, reaching up 4.5 g/L within 14 days. Structural characterization of the purified melanin from A. resinae was carried out by using elemental analysis, electron paramagnetic resonance, 13C solid-state nuclear magnetic resonance spectroscopy, and pyrolysis-gas chromatography-mass spectrometry in comparison with the standard melanins. The results indicate that the structural properties of A. resinae melanin is similar to the eumelanin which has a wide range of industrial uses. For example, the purified melanin from A. resinae has the potent antioxidant activities as a result of free radical scavenging assays. Consequently, A. resinae KUC3009 can be a promising candidate for scalable production of industrially applicable melanin.

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Genomic Analysis and Assessment of Melanin Synthesis in Amorphotheca resinae KUC3009
Jeong-Joo Oh, Young Jun Kim, Jee Young Kim, Sun Lul Kwon, Changsu Lee, Myeong-Eun Lee, Jung Woo Kim, Gyu-Hyeok Kim
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Retracted Publication

Cryptic prophages in a blaNDM-1-bearing plasmid increase bacterial survival against high NaCl concentration, high and low temperatures, and oxidative and immunological stressors: So Yeon Kim , Kwan Soo Ko; J. Microbiol. 2020;58(6):483-488. Published online March 28, 2020; DOI: https://doi.org/10.1007/s12275-020-9605-6

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Abstract

In this study, we investigated the effect of cryptic prophage regions in a blaNDM-1-bearing plasmid, which was identified in a patient from South Korea, on the survival of bacteria against adverse environmental conditions. First, we conjugated the intact plasmid and plasmids with deleted cryptic prophages into Escherichia coli DH5α. The E. coli transconjugants carrying the plasmid with intact cryptic prophages showed increased survival during treatment with a high concentration of NaCl, high and low temperatures, an oxidative stressor (H2O2), and an immunological stressor (human serum). By contrast, the transconjugants carrying the plasmid with a single-cryptic prophage knockout did not show any change in survival rates. mRNA expression analyses revealed that the genes encoding sigma factor proteins were highly upregulated by the tested stressors and affected the expression of various proteins (antioxidant, cell osmosis-related, heat shock, cold shock, and universal stress proteins) associated with the specific defense against each stress. These findings indicate that a bacterial strain carrying a plasmid with intact carbapenemase gene and cryptic prophage regions exhibited an increased resistance against simulated environmental stresses, and cryptic prophages in the plasmid might contribute to this enhanced stress resistance. Our study indicated that the coselection of antibiotic resistance and resistance to other stresses may help bacteria to increase survival rates against adverse environments and disseminate.

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Journal Articles

Flavobacterium humi sp. nov., a flexirubin-type pigment producing bacterium, isolated from soil: Inhyup Kim , Jiyoun Kim , Geeta Chhetri , Taegun Seo; J. Microbiol. 2019;57(12):1079-1085. Published online November 22, 2019; DOI: https://doi.org/10.1007/s12275-019-9350-x

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Abstract

A yellow pigmented, Gram-stain-negative, strictly aerobic, rod-shaped, motile by means of gliding, catalase and oxidase positive bacterium, designated strain DS2-AT, was isolated from soil. Growth was observed at 4–32°C (optimum, 28°C), pH 6–9 (optimum, 7.0), and with 0–0.25% (w/v) NaCl (optimum, 0%). Phylogenetic analysis of 16S rRNA gene sequence revealed that strain DS2-AT belonged to the genus Flavobacterium and was most closely related to Flavobacterium aquatile LMG 4008T (96.4%), Flavobacterium terrae DSM 18829T (95.6%), Flavobacterium vireti THG-SM1T (95.5%), Flavobacterium inkyongense IMCC27201T (95.4%), Flavobacterium brevivitae TTM-43T (95.2%), and Flavobacterium cucumis DSM 18830T (95.2%). Strain DS2-AT produces flexirubin- type pigments. The major fatty acids were iso-C15:0, iso-C17:0 3-OH, and iso-C15:0 3-OH. The major respiratory quinone was identified as menaquinone-6. The major polar lipid was found to be phosphatidylethanolamine. The average nucleotide identity values between strain DS2-AT and selected taxa, F. aquatile LMG 4008T, F. terrae DSM 18829T, and F. cucumis DSM 18830T, were 72, 72.7, and 71.6%, respectively. The draft genome of strain DS2-AT has a number of 14 contigs, scaffold N50 of 476,310 bp and a total size of 3,563,867 bp. Additionally, strain DS2-AT contains 3,127 of gene, 41 of tRNA, 6 of rRNA, and 3 of ncRNA. The DNA G + C content of stain DS2-AT was 40.7 mol%. Based on phylogenetic and phenotypic analyses, strain DS2-AT is considered as a novel species of the genus Flavobacterium, for which the name Flavobacterium humi sp. nov., (type strain DS2-AT = KACC 19715T = JCM 32786T) has been proposed.

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A description of Joostella sp. strain CR20 with potential biotechnological applications
Muhammad Ramziuddin Zakaria, Maša Vodovnik, Maša Zorec, Kok Jun Liew, Lili Tokiman, Chun Shiong Chong
Antonie van Leeuwenhoek.2025;[Epub] CrossRef
Paenibacillus suaedae sp. nov. and Paenibacillus violae sp. nov., isolated from the roots of Suaeda japonica Makino and Viola mandshurica W. Becker with plant growth-promoting potential
Inhyup Kim, Sunho Park, Yonghee Jung, Haejin Woo, Hyunji Lee, Subin Yook, Taegun Seo
International Journal of Systematic and Evolutionary Microbiology .2024;[Epub] CrossRef
Pigments from pathogenic bacteria: a comprehensive update on recent advances
Kusumita Acharya, Swarna Shaw, Sudipta Paul Bhattacharya, Shatarupa Biswas, Suman Bhandary, Arijit Bhattacharya
World Journal of Microbiology and Biotechnology.2024;[Epub] CrossRef
Multiomics dissection of Brassica napus L. lateral roots and endophytes interactions under phosphorus starvation
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Gayathri Devi Kandasamy, Preethi Kathirvel
Archives of Microbiology.2024;[Epub] CrossRef
Comprehensive genome analysis of five novel flavobacteria: Flavobacterium piscisymbiosum sp. nov., Flavobacterium pisciphilum sp. nov., Flavobacterium flavipigmentatum sp. nov., Flavobacterium lipolyticum sp. nov. and Flavobacterium cupriresistens sp. nov
Izzet Burcin Saticioglu, Hilal Ay, Soner Altun, Nihed Ajmi, Enes Said Gunduz, Huban Gocmen, Muhammed Duman
Systematic and Applied Microbiology.2024; 47(4): 126518. CrossRef
Isolation of Massilia species capable of degrading Poly(3-hydroxybutyrate) isolated from eggplant (Solanum melongena L.) field
Geeta Chhetri, Hyun-Joong Kim, Jong-Min Jeon, Jeong-Jun Yoon
Chemosphere.2024; 368: 143776. CrossRef
Gilvirhabdus luticola gen. nov., sp. nov., a mesophilic and halophilic bacterium isolated from tidal flat sediment
Jaincy N. Jayan, Hee-Su Kim, Sathiyaraj Srinivasan, Hyung-Seop Kim, Jae-Yon Yu, Sang-Seob Lee
International Journal of Systematic and Evolutionary Microbiology .2024;[Epub] CrossRef
Planobacterium oryzisoli sp. nov., a novel bacterium isolated from roots of rice plant
Geeta Chhetri, Inhyup Kim, Sunho Park, Yonghee Jung, Taegun Seo
Archives of Microbiology.2023;[Epub] CrossRef
Characterization and Antioxidant Activity of Exopolysaccharides Produced by Lysobacter soyae sp. nov Isolated from the Root of Glycine max L.
Inhyup Kim, Geeta Chhetri, Yoonseop So, Sunho Park, Yonghee Jung, Haejin Woo, Taegun Seo
Microorganisms.2023; 11(8): 1900. CrossRef
Devosia oryzisoli sp. nov., a novel moderately halotolerant bacterium isolated from the roots of rice plants and genome mining revealed the biosynthesis potential as plant growth promoter
Geeta Chhetri, Inhyup Kim, Taegun Seo
Antonie van Leeuwenhoek.2023; 116(3): 231. CrossRef
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Jina Kim, In-Tae Cha, Ki-Eun Lee, Youn Kyoung Son, Jaewoong Yu, Donghyeok Seol
Archives of Microbiology.2023;[Epub] CrossRef
Chryseobacterium edaphi sp. nov. and Chryseobacterium gilvum sp. nov., isolated from soil
Yonghee Jung, Geeta Chhetri, Inhyup Kim, Yoonseop So, Sunho Park, Haejin Woo, Ki-Ho Lee, Taegun Seo
International Journal of Systematic and Evolutionary Microbiology .2023;[Epub] CrossRef
Marixanthotalea marina gen. nov., sp. nov., a bacterium in the family Flavobacteriaceae isolated from seawater
Zi-Yue Fu, Hua-Peng Xue, Wei He, Guang-Yuan Ma, Ai Hua Zhang, Dao-Feng Zhang, Wen-Jun Li
International Journal of Systematic and Evolutionary Microbiology .2023;[Epub] CrossRef
Ideonella oryzae sp. nov., isolated from soil, and Spirosoma liriopis sp. nov., isolated from fruits of Liriope platyphylla
Yonghee Jung, Geeta Chhetri, Inhyup Kim, Yoonseop So, Sunho Park, Taegun Seo
International Journal of Systematic and Evolutionary Microbiology .2023;[Epub] CrossRef
Neoroseomonas alba sp. nov., Neoroseomonas nitratireducens sp. nov., Paraoseomonas indoligenes sp. nov and Paraoseomonas baculiformis sp. nov., isolated from the rhizosphere of paddy soil
Yoonseop So, Geeta Chhetri, Inhyup Kim, Jiyoun Kim, Sunho Park, Yonghee Jung, Taegun Seo
Antonie van Leeuwenhoek.2023; 116(10): 1009. CrossRef
Halomonas antri sp. nov., a carotenoid-producing bacterium isolated from surface seawater
Yoonseop So, Geeta Chhetri, Inhyup Kim, Minchung Kang, Jiyoun Kim, Byungjo Lee, Wonhee Jang, Taegun Seo
International Journal of Systematic and Evolutionary Microbiology .2022;[Epub] CrossRef
Devosia rhizoryzae sp. nov., and Devosia oryziradicis sp. nov., novel plant growth promoting members of the genus Devosia, isolated from the rhizosphere of rice plants
Geeta Chhetri, Inhyup Kim, Minchung Kang, Jiyoun Kim, Yoonseop So, Taegun Seo
Journal of Microbiology.2022; 60(1): 1. CrossRef
An Isolated Arthrobacter sp. Enhances Rice (Oryza sativa L.) Plant Growth
Geeta Chhetri, Inhyup Kim, Minchung Kang, Yoonseop So, Jiyoun Kim, Taegun Seo
Microorganisms.2022; 10(6): 1187. CrossRef
Chryseobacterium tagetis sp. nov., a plant growth promoting bacterium with an antimicrobial activity isolated from the roots of medicinal plant (Tagetes patula)
Geeta Chhetri, Inhyup Kim, Jiyoun Kim, Yoonseop So, Taegun Seo
The Journal of Antibiotics.2022; 75(6): 312. CrossRef
Sphingosinicella flava sp. nov., indole acetic acid producing bacteria isolated from maize field soil
Geeta Chhetri, Minchung Kang, Jiyoun Kim, Inhyup Kim, Yoonseop So, Taegun Seo
International Journal of Systematic and Evolutionary Microbiology .2021;[Epub] CrossRef
Fuscibacter oryzae gen. nov., sp. nov., a phosphate-solubilizing bacterium isolated from the rhizosphere of rice plant
Geeta Chhetri, Minchung Kang, Jiyoun Kim, Inhyup Kim, Yoonseop So, Taegun Seo
Antonie van Leeuwenhoek.2021; 114(9): 1453. CrossRef
Production, purification, and process optimization of intracellular pigment from novel psychrotolerant Paenibacillus sp. BPW19
Bhagyashree Padhan, Kasturi Poddar, Debapriya Sarkar, Angana Sarkar
Biotechnology Reports.2021; 29: e00592. CrossRef
Taibaiella lutea sp. nov., Isolated from Ubiquitous Weedy Grass
Geeta Chhetri, Inhyup Kim, Jiyoun Kim, Minchung Kang, Taegun Seo
Current Microbiology.2021; 78(7): 2799. CrossRef
Flavobacterium tagetis sp. nov., a novel urea-hydrolysing bacterium isolated from the roots of Tagetes patula
Geeta Chhetri, Inhyup Kim, Minchung Kang, Jiyoun Kim, Yoonseop So, Taegun Seo
International Journal of Systematic and Evolutionary Microbiology .2021;[Epub] CrossRef
Characterization of Phosphate Solubilising Bacteria Isolated from Rhizosphere Soils of Piper nigrum L.
Ashritha ., B. Raghavendr, M. Ramya Rai, P. Nagaraj, P. Visweswara
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Characteristics of the gut microbiota colonization, inflammatory profile, and plasma metabolome in intrauterine growth restricted piglets during the first 12 hours after birth: Shimeng Huang , Na Li , Cong Liu , Tiantian Li , Wei Wang , Lili Jiang , Zhen Li , Dandan Han , Shiyu Tao , Junjun Wang; J. Microbiol. 2019;57(9):748-758. Published online June 11, 2019; DOI: https://doi.org/10.1007/s12275-019-8690-x

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Abstract

Intrauterine growth restriction (IUGR) predisposes newborns to inflammatory and metabolic disturbance. Disequilibrium of gut microbiota in early life has been implicated in the incidence of inflammation and metabolic diseases in adulthood. This study aimed to investigate the difference in gut microbiota colonization, cytokines and plasma metabolome between IUGR and normal birth weight (NBW) piglets in early life. At birth, reduced (P < 0.05) body, jejunum, and ileum weights, as well as decreased (P < 0.05) small intestinal villi and increased (P < 0.05) ileal crypt depth were observed in IUGR piglets compared with their NBW counterparts. Imbalanced inflammatory and plasma metabolome profile was observed in IUGR piglets. Furthermore, altered metabolites were mainly involved in fatty acid metabolism and inflammatory response. At 12 h after birth and after suckling colostrum, reduced (P < 0.05) postnatal growth and the small intestinal maturation retardation (P < 0.05) continued in IUGR piglets in comparison with those in NBW littermates. Besides, the gut microbiota structure was significantly altered by IUGR. Importantly, the disruption of the inflammatory profile and metabolic status mainly involved the pro-inflammatory cytokines (IL-1β and IFN-γ) and amino acid metabolism. Moreover, spearman correlation analysis showed that the increased abundance of Escherichia-Shigella and decreased abundance of Clostridium_sensu_stricto_1 in IUGR piglets was closely associated with the alterations of slaughter weight, intestinal morphology, inflammatory cytokines, and plasma metabolites. Collectively, IUGR significantly impairs small intestine structure, modifies gut microbiota colonization, and disturbs inflammatory and metabolic profiles during the first 12 h after birth. The unbalanced gut microbiota mediated by IUGR contributes to the development of inflammation and metabolic diseases.

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Photosynthetic and biochemical responses of the freshwater green algae Closterium ehrenbergii Meneghini (Conjugatophyceae) exposed to the metal coppers and its implication for toxicity testing: Hui Wang , Vinitha Ebenezer , Jang-Seu Ki; J. Microbiol. 2018;56(6):426-434. Published online June 1, 2018; DOI: https://doi.org/10.1007/s12275-018-8081-8

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Abstract

The freshwater green algae Closterium is sensitive to water quality, and hence has been suggested as ideal organisms for toxicity testing. In the present study, we evaluated the photosynthetic and biochemical responses of C. ehrenbergii to the common contaminants, coppers. The 72 h median effective concentrations (EC50) of CuSO4 and CuCl2 on the test organism were calculated to be 0.202 mg/L and 0.245 mg/L, respectively. Exposure to both coppers considerably decreased pigment levels and photosynthetic efficiency, while inducing the generation of reactive oxygen species (ROS) in cells with increased exposure time. Moreover, the coppers significantly increased the levels of lipid peroxidation and superoxide dismutase (SOD) activity, even at relatively lower concentrations. These suggest that copper contaminants may exert deleterious effects on the photosynthesis and cellular oxidative stress of C. ehrenbergii, representing its powerful potential in aquatic toxicity assessments.

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Core gut microbiota in Jinhua pigs and its correlation with strain, farm and weaning age: Hua Yang , Yingping Xiao , Junjun Wang , Yun Xiang , Yujie Gong , Xueting Wen , Defa Li; J. Microbiol. 2018;56(5):346-355. Published online May 2, 2018; DOI: https://doi.org/10.1007/s12275-018-7486-8

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Abstract

Gut microbial diversity and the core microbiota of the Jinhua pig, which is a traditional, slow-growing Chinese breed with a high body-fat content, were examined from a total of 105 fecal samples collected from 6 groups of pigs at 3 weaning ages that originated from 2 strains and were raised on 3 different pig farms. The bacterial community was analyzed following high-throughput pyrosequencing of 16S rRNA genes, and the fecal concentrations of short-chain fatty acids (SCFAs) were measured by gas chromatograph. Our results showed that Firmicutes and Bacteroidetes were the dominant phyla, and Lactobacillus, Streptococcus, Clostridium, SMB53, and Bifidobacterium were the most abundant genera. Fifteen predominant genera present in every Jinhua pig sample constituted a phylogenetic core microbiota and included the probiotics Lactobacillus and Bifidobacterium, and the SCFAproducing bacteria Clostridium, Prevotella, Bacteroides, Coprococcus, Roseburia, Ruminococcus, Blautia, and Butyricicoccus. Comparisons of the microbiota compositions and SCFA concentrations across the 6 groups of pigs demonstrated that genetic background and weaning age affected the structure of the gut microbiota more significantly than the farm. The relative abundance of the core genera in the pigs, including Lactobacillus, Clostridium, Prevotella, Bacteroides, Roseburia, Ruminococcus, Blautia, and Butyricicoccus varied dramatically in pigs among the 2 origins and 3 weaning ages, while Oscillospira, Megasphaera, Parabacteroides, and Corynebacterium differed among pigs from different farms. Interestingly, there was a more significant influence of strain and weaning age than of rearing farm on the SCFA concentrations. Therefore, strain and weaning age appear to be the more important factors shaping the intestinal microbiome of pigs.

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Guinea pig complement potently measures vibriocidal activity of human antibodies in response to cholera vaccines: Kyoung Whun Kim , Soyoung Jeong , Ki Bum Ahn , Jae Seung Yang , Cheol-Heui Yun , Seung Hyun Han; J. Microbiol. 2017;55(12):973-978. Published online December 7, 2017; DOI: https://doi.org/10.1007/s12275-017-7478-0

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Abstract

The vibriocidal assay using guinea pig complement is widely used for the evaluation of immune responses to cholera vaccines in human clinical trials. However, it is unclear why guinea pig complement has been used over human complement in the measurement of vibriocidal activity of human sera and there have not been comparison studies for the use of guinea pig complement over those from other species. Therefore, we comparatively investigated the effects of complements derived from human, guinea pig, rabbit, and sheep on vibriocidal activity. Complements from guinea pig, rabbit, and human showed concentration-dependent vibriocidal activity in the presence of quality control serum antibodies. Of these complements, guinea pig complement was the most sensitive and effective over a wide concentration range. When the vibriocidal activity of complements was measured in the absence of serum antibodies, human, sheep, and guinea pig complements showed vibriocidal activity up to 40-fold, 20- fold, and 1-fold dilution, respectively. For human pre- and post-vaccination sera, the most potent vibriocidal activity was observed when guinea pig complement was used. In addition, the highest fold-increases between pre- and post- vaccinated sera were obtained with guinea pig complement. Furthermore, human complement contained a higher amount of V. cholerae- and its lipopolysaccharide-specific antibodies than guinea pig complement. Collectively, these results suggest that guinea pig complements are suitable for vibriocidal assays due to their high sensitivity and effectiveness to human sera.

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Immunogenicity and protective efficacy of a live, oral cholera vaccine formulation stored outside-the-cold-chain for 140 days
Tew Hui Xian, Kurunathan Sinniah, Chan Yean Yean, Venkateskumar Krishnamoorthy, Mohd Baidi Bahari, Manickam Ravichandran, Guruswamy Prabhakaran
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A high-throughput, bead-based, antigen-specific assay to assess the ability of antibodies to induce complement activation
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Journal of Immunological Methods.2019; 473: 112630. CrossRef
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Journal of Clinical Virology.2019; 117: 68. CrossRef

Nocardioides suum sp. nov. isolated from the air environment in an indoor pig farm: Siwon Lee , Wonseok Lee , Hyen-Mi Chung , Sangjung Park; J. Microbiol. 2017;55(6):417-420. Published online April 20, 2017; DOI: https://doi.org/10.1007/s12275-017-6313-y

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Abstract

A bacterial strain PBT33-2T was isolated from the air environ-ment in an indoor pig farm. Phylogenetic analysis based on 16S rRNA gene sequences revealed that strain PBT33-2T be-longed to the genus Nocardioides in the phylum Actinobac-teria, and was most closely related to Nocardioides daphnia D287T in a maximum-likelihood and neighbor-joining phy-logenetic trees. Strain PBT33-2T shared 95.3% sequence iden-tity with N. daphnia D287T. However, the highest sequence similarity was shown with N. sediminis MSL-01T (96.0%). It had less than 96.0% sequence identities with other type spe-cies of the genus Nocardioides. Strain PBT-33-2T grew at 15–45°C (optimum 20–35°C), pH 5.0–11.0 (optimum pH 7.0) and 0–4.0% (w/v) NaCl (optimum 0%). The major fatty acid and quinone were iso-C16:0 and MK-8, and the DNA G+C content of strain PBT33-2T was 69.3 mol%. On the basis of poly-phasic results, strain PBT33-2T represents a novel spe-cies of the genus Nocardioides, for which the name Nocar-dioides suum sp. nov. is proposed. Its type strain is PBT33-2T (=KCTC 39558T =DSM 102833T).

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Research Support, Non-U.S. Gov't

Effects of blue light on pigment biosynthesis of Monascus: Di Chen , Chunmao Xue , Mianhua Chen , Shufen Wu , Zhenjing Li , Changlu Wang; J. Microbiol. 2016;54(4):305-310. Published online April 1, 2016; DOI: https://doi.org/10.1007/s12275-016-6011-1

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Abstract

The influence of different illumination levels of blue light on the growth and intracellular pigment yields of Monascus strain M9 was investigated. Compared with darkness, constant exposure to blue light of 100 lux reduced the yields of six pigments, namely, rubropunctatamine (RUM), monascorubramine (MOM), rubropunctatin (RUN), monascorubrin (MON), monascin (MS), and ankaflavin (AK). However, exposure to varying levels of blue light had different effects on pigment production. Exposure to 100 lux of blue light once for 30 min/day and to 100 lux of blue light once and twice for 15 min/day could enhance RUM, MOM, MS, and AK production and reduce RUN and MON compared with non-exposure. Exposure to 100 lux twice for 30 min/day and to 200 lux once for 45 min/day decreased the RUM, MOM, MS, and AK yields and increased the RUN and MON. Meanwhile, the expression levels of pigment biosynthetic genes were analyzed by real-time quantitative PCR. Results indicated that gene MpPKS5, mppR1, mppA, mppB, mmpC, mppD , MpFasA, MpFasB, and mppF were positively correlated with the yields of RUN and MON, whereas mppE and mppR2 were associated with RUM, MOM, MS, and AK production.

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Journal Article

Description of a novel pectin-degrading bacterial species Prevotella pectinovora sp. nov., based on its phenotypic and genomic traits: Brigita Nograsek , Tomaz Accetto , Lijana Fanedl , Gorazd Avgustin; J. Microbiol. 2015;53(8):503-510. Published online July 31, 2015; DOI: https://doi.org/10.1007/s12275-015-5142-0

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Abstract

Five strictly anaerobic Gram-negative bacterial strains, P4-65, P4-76T, P5-60, P5-119, and P5-125, presumably belonging to the genus Prevotella were isolated from pig fecal samples. Strains were tested for various phenotypic traits and nearcomplete genome sequences were obtained and analyzed. Phylogenetic analysis based on 16S rRNA gene sequences and multilocus sequence analysis based on five conserved genes confirmed that the strains belong to the genus Prevotella, revealing that they represent a novel and discrete lineage distinct from other known species of this genus. The size of the genome of the isolated strains is 3?.3 Mbp, and the DNA G+C content is 47.5?8.1 mol%. The isolates are strictly anaerobic, rod-shaped with rounded ends, non-motile and non-spore-forming. The main fermentation products are succinate and acetate, with minor concentrations of isovalerate, propionate and isobutyrate. Hydrogen is also produced. Major cellular fatty acids consist of anteiso-C15:0 and iso-C15:0, and a number of additional acids are present in lower concentrations. A substantial portion of genes involved in carbohydrate utilization is devoted to pectin degradation and utilization, while those supporting growth on xylan in ruminal Prevotella could not have been revealed. On the basis of the presented results, a novel species, Prevotella pectinovora sp. nov. is proposed. The type strain is P4-76T (=DSM 29996T =ZIM B1020T).

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Two Rhizobacterial Strains, Individually and in Interactions with Rhizobium sp., Enhance Fusarial Wilt Control, Growth, and Yield in Pigeon Pea: Swarnalee Dutta , Pranjal Morang , Nishanth Kumar S , B.S. Dileep Kumar; J. Microbiol. 2014;52(9):778-784. Published online September 2, 2014; DOI: https://doi.org/10.1007/s12275-014-3496-3

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Abstract

A Pseudomonas aeruginosa strain, RRLJ 04, and a Bacillus cereus strain, BS 03, were tested both individually and in combination with a Rhizobium strain, RH 2, for their ability to enhance plant growth and nodulation in pigeon pea (Cajanus cajan L.) under gnotobiotic, greenhouse and field conditions. Both of the rhizobacterial strains exhibited a positive effect on growth in terms of shoot height, root length, fresh and dry weight, nodulation and yield over the non-treated control. Co-inoculation of seeds with these strains and Rhizobium RH 2 also reduced the number of wilted plants, when grown in soil infested with Fusarium udum. Gnotobiotic studies confirmed that the suppression of wilt disease was due to the presence of the respective PGPR strains. Seed bacterization with drug-marked mutants of RRLJ 04 and BS 03 confirmed their ability to colonize and multiply along the roots. The results suggest that co-inoculation of these strains with Rhizobium strain RH 2 can be further exploited for enhanced growth, nodulation and yield in addition to control of fusarial wilt in pigeon pea.

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Population and diversity of pigeonpea rhizobia from the Indo-Gangetic plains of India
Shiv Charan Kumar, Prachi Singh, Murugan Kumar, Mahendra Vikram Singh Rajawat, Waquar Akhter Ansari, Desiraju Lakshmi Narsimha Rao, Anil Kumar Saxena
Symbiosis.2023; 90(2): 213. CrossRef
Coinoculation impact on plant growth promotion: a review and meta-analysis on coinoculation of rhizobia and plant growth-promoting bacilli in grain legumes
Glaciela Kaschuk, André Carlos Auler, Crislaine Emidio Vieira, Felix Dapore Dakora, Sanjay K. Jaiswal, Sonia Purin da Cruz
Brazilian Journal of Microbiology.2022; 53(4): 2027. CrossRef
An improved high-throughput method for assessing the impact of bioformulation on plant parameters: Case study with pigeonpea seeds
Sakshi Tewari, Shilpi Sharma
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Rhizobial-metabolite based biocontrol of fusarium wilt in pigeon pea
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Tea root brown-rot fungus disease reduction and yield recovery with rhizobacteria inoculation in both nursery and field trials
P. Morang, S.P. Devi, D.K. Jha, B.K. Dutta, B.S. Dileep Kumar
Rhizosphere.2018; 6: 89. CrossRef
Lettuce and rhizosphere microbiome responses to growth promotingPseudomonasspecies under field conditions
Matheus A. P. Cipriano, Manoeli Lupatini, Lucilene Lopes-Santos, Márcio J. da Silva, Luiz F. W. Roesch, Suzete A. L. Destéfano, Sueli S. Freitas, Eiko E. Kuramae, Angela Sessitsch
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Bradyrhizobium yuanmingense related strains form nitrogen-fixing symbiosis with Cajanus cajan L. in Dominican Republic and are efficient biofertilizers to replace N fertilization
Juan Araujo, César-Antonio Díaz-Alcántara, Encarna Velázquez, Beatriz Urbano, Fernando González-Andrés
Scientia Horticulturae.2015; 192: 421. CrossRef

Preliminary Study about Sublingual Administration of Bacteria-expressed Pandemic H1N1 Influenza Vaccine in Miniature Pigs: Hyekwon Kim , Jeong-Ki Kim , Hohyun Song , Jungah Choi , Byoungshik Shim , Bokyu Kang , Hyoungjoon Moon , Minjoo Yeom , Sang-Hyun Kim , Daesub Song , Manki Song; J. Microbiol. 2014;52(9):794-800. Published online July 30, 2014; DOI: https://doi.org/10.1007/s12275-014-4289-4

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Abstract

Sublingual (SL) administration of influenza vaccine would be non-invasive and effective way to give human populations protective immunity against the virus, especially when pandemic influenza outbreaks. In this study, the efficacy of pandemic influenza virus-based subunit vaccines was tested after sublingual (SL) adjuvant administration in pigs. Eight specific pathogen-free Yucatan pigs were divided into 4 groups: nonvaccinated but challenged (A) and vaccinated and challenged (B, C, and D). The vaccinated groups were subdivided by vaccine type and inoculation route: SL subunit vaccine (hemagglutinin antigen 1 [HA1] + wild-type cholera toxin [wtCT], B); IM subunit vaccine (HA1 + aluminum hydroxide, C); and IM inactivated vaccine (+ aluminum hydroxide, D). The vaccines were administered twice at a 2-week interval. All pigs were challenged with pandemic influenza virus (A/swine/ GCVP-KS01/2009 [H1N1]) and monitored for clinical signs, serology, viral shedding, and histopathology. After vaccination, hemagglutination inhibition titre was higher in group D (320) than in the other vaccinated groups (40–80) at the time of challenge. The mobility and feed intake were reduced in group C. Both viral shedding and histopathological lesions were reduced in groups B and D. Although this study has limitation due to the limited number of pigs (2 pigs per a group), the preliminary data in this study provided the protective potential of SL administration of bacteria-expressed pandemic H1N1 influenza vaccine in pigs. There should be additional animal studies about effective adjuvant system and vaccine types for the use of SL influenza vaccination.

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Hyesun Jang, Michele Matsuoka, Marcelo Freire
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Pathological Evaluation of Porcine Circovirus 2d (PCV2d) Strain and Comparative Evaluation of PCV2d and PCV2b Inactivated Vaccines against PCV2d Infection in a Specific Pathogen-Free (SPF) Yucatan Miniature Pig Model
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Vaccines.2022; 10(9): 1469. CrossRef
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Vacunas.2019; 20(1): 37. CrossRef
The sublingual influenza vaccine
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Vacunas (English Edition).2019; 20(1): 37. CrossRef
Experimental miniature piglet model for the infection of human norovirus GII
Dong Joo Seo, Day Jung, Soontag Jung, Seung‐Kwon Ha, Sang‐Do Ha, In‐Soo Choi, Jinjong Myoung, Changsun Choi
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