Journal of Microbiology

Journal Articles

Differences in the gut microbiota between Cercopithecinae and Colobinae in captivity: Zongjin Huan , Yongfang Yao , Jianqiu Yu , Hongwei Chen , Meirong Li , Chaojun Yang , Bo Zhao , Qingyong Ni , Mingwang Zhang , Meng Xie , Huailiang Xu; J. Microbiol. 2020;58(5):367-376. Published online March 28, 2020; DOI: https://doi.org/10.1007/s12275-020-9493-9

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The gut microbiome of captive primates can provide a window into their health and disease status. The diversity and composition of gut microbiota are influenced by not only host phylogeny, but also host diet. Old World monkeys (Cercopithecidae) are divided into two subfamilies: Cercopithecinae and Colobinae. The diet and physiological digestive features differ between these two subfamilies. Accordingly, highthroughput sequencing was used to examine gut microbiota differences between these two subfamilies, using data from 29 Cercopithecinae individuals and 19 Colobinae individuals raised in captivity. Through a comparative analysis of operational taxonomic units (OTUs), significant differences in the diversity and composition of gut microbiota were observed between Cercopithecinae and Colobinae. In particular, the gut microbiota of captive Old World monkeys clustered strongly by the two subfamilies. The Colobinae microbial diversity was higher than that of Cercopithecinae. Additionally, Firmicutes, Lactobacillaceae, Veillonellaceae, and Prevotella abundance were higher in Cercopithecinae, while Bacteroidetes, Ruminococcaceae, Christensenellaceae, Bacteroidaceae, and Acidaminococcaceae abundance were higher in Colobinae. PICRUSt analysis revealed that the predicted metagenomes of metabolic pathways associated with proteins, carbohydrates, and amino acids were significantly higher in Colobinae. In the context of host phylogeny, these differences between Cercopithecinae and Colobinae could reflect adaptations associated with their respective diets. This well-organized dataset is a valuable resource for future related research on primates and gut microbiota. Moreover, this study may provide useful insight into animal management practices and primate conservation.

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Present status and trends of “ex situ” Cercopithecinae monkey populations worldwide
D. Fraschetti, S. Gippoliti
Journal for Nature Conservation.2024; 81: 126687. CrossRef
Assessment of Gut Microbiome Variations in the Mother and Twin Infant of Captive White-handed Gibbons (Hylobates lar) Reveals the Presence of Beneficial and Pathogenic Bacteria
Badrul Munir Md-Zain, Siti Hajar Azmi, Roberta Chaya Tawie Tingga, Millawati Gani, Mohamad Khairulmunir, Abd Rahman Mohd-Ridwan
Malaysian Applied Biology.2024; 53(3): 39. CrossRef
Isolation of Bacteria from Freeze-Dried Samples and the Functional Characterization of Species-Specific Lactic Acid Bacteria with a Comparison of Wild and Captive Proboscis Monkeys
Nami Suzuki-Hashido, Sayaka Tsuchida, Akinori Azumano, Benoit Goossens, Diana A. Ramirez Saldivar, Danica J. Stark, Augustine Tuuga, Kazunari Ushida, Ikki Matsuda
Microorganisms.2023; 11(6): 1458. CrossRef
Lineage-specific accelerated sequences underlying primate evolution
Xupeng Bi, Long Zhou, Jin-Jin Zhang, Shaohong Feng, Mei Hu, David N. Cooper, Jiangwei Lin, Jiali Li, Dong-Dong Wu, Guojie Zhang
Science Advances.2023;[Epub] CrossRef
β-mannanase supplemented in diets saved 85 to 100 kcal of metabolizable energy/kg, supporting growth performance and improving nutrient digestibility in grower pigs
Jansller Luiz Genova, Liliana Bury de Azevedo, Paulo Evaristo Rupolo, Flávia Beatriz Carvalho Cordeiro, Hellen Lazarino Oliveira Vilela, Pedro Silva Careli, Damares de Castro Fidelis Toledo, Silvana Teixeira Carvalho, Marcos Kipper, Luciana Navajas Rennó,
Scientific Reports.2023;[Epub] CrossRef
Description of Deefgea piscis sp. nov., and Deefgea tanakiae sp. nov., isolated from the gut of Korean indigenous fish
Do-Hun Gim, So-Yeon Lee, Jeong Eun Han, Jae-Yun Lee, Seo Min Kang, Jin-Woo Bae
Journal of Microbiology.2022; 60(11): 1061. CrossRef
The Gut Microbiota Composition of Cnaphalocrocis medinalis and Their Predicted Contribution to Larval Nutrition
Chuanming Li, Guangjie Han, Jun Sun, Lixin Huang, Yurong Lu, Yang Xia, Qin Liu, Jian Xu
Frontiers in Microbiology.2022;[Epub] CrossRef
The gut microbiota of gibbons across host genus and captive site in China
Li‐Ying Lan, Yu‐Yan You, Qi‐Xuan Hong, Qun‐Xiu Liu, Chun‐Zhong Xu, Wu Chen, Ying‐Di Zhu, Xue‐Qing Du, Peng‐Fei Fan
American Journal of Primatology.2022;[Epub] CrossRef
Fecal Bacterial Community of Allopatric Przewalski’s Gazelles and Their Sympatric Relatives
Ruoshuang Liu, Jianbin Shi, Susanne Shultz, Dongsheng Guo, Dingzhen Liu
Frontiers in Microbiology.2021;[Epub] CrossRef
Fecal bacterial communities of wild black capuchin monkeys (Sapajus nigritus) from the Atlantic Forest biome in Southern Brazil are divergent from those of other non-human primates
Tiela Trapp Grassotti, Caroline Isabel Kothe, Janira Prichula, Nacer Mohellibi, Michele Bertoni Mann, Paulo Guilherme Carniel Wagner, Fabricio Souza Campos, Aline Alves Scarpellini Campos, Jeverson Frazzon, Ana Paula Guedes Frazzon
Current Research in Microbial Sciences.2021; 2: 100048. CrossRef

Jejubacter calystegiae gen. nov., sp. nov., moderately halophilic, a new member of the family Enterobacteriaceae, isolated from beach morning glory: Lingmin Jiang , Dexin Wang , Jung-Sook Lee , Dae-Hyuk Kim , Jae Cheol Jeong , Cha Young Kim , Suk Weon Kim , Jiyoung Lee; J. Microbiol. 2020;58(5):357-366. Published online March 27, 2020; DOI: https://doi.org/10.1007/s12275-020-9294-1

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Abstract

Strain KSNA2T, a Gram-negative, moderately halophilic, facultatively anaerobic, motile, rod-shaped bacterium, was isolated from the surface-sterilized stem tissue of a beach morning glory (Calystegia soldanella) plant in Chuja Island, Jejudo, Republic of Korea. Phylogenetic analysis based on 16S rRNA gene and whole-genome sequences revealed that strain KSNA2T formed a distinct lineage within the family Enterobacteriaceae, with the highest 16S rRNA gene sequence similarity to Izhakiella australiensis KCTC 72143T (96.2%) and Izhakiella capsodis KCTC 72142T (96.0%), exhibited 95.5– 95.9% similarity to other genera in the family Enterobacteriaceae and Erwiniaceae. Conserved signature indels analysis elucidated that strain KSNA2T was delimited into family Enterobacteriaceae. KSNA2T genome comprises a circular chromosome of 5,182,800 bp with 56.1% G + C content. Digital DNA-DNA relatedness levels between strain KSNA2T and 18 closely related species were 19.3 to 21.1%. Average nucleotide identity values were between 72.0 and 76.7%. Growth of strain KSNA2T was observed at 4 to 45°C (optimum, 25°C) and pH 5.0 to 12.0 (optimum, pH 7.0) in the presence of 0 to 11% (w/v) NaCl (optimum, 0–7%). The major cellular fatty acids (> 10%) were C16:0 followed by summed feature 8 (C18:1 ω7c and/or C18:1 ω6c), summed feature 3 (C16:1 ω7c and/or C16:1 ω6c), C17:0 cyclo, and C14:0. The major isoprenoid quinone was ubiquinone-8 (Q-8). With combined phylogenetic, genomic, phenotypic, and chemotaxonomic features, strain KSNA2T represents a novel species of a new genus in the family Enterobacteriaceae, for which the name Jejubacter calystegiae gen. nov., sp. nov. is proposed. The type strain is KSNA2T (= KCTC 72234T = CCTCC AB 2019098T).

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Pseudoxanthomonas sp. JBR18, a halotolerant endophytic bacterium, improves the salt tolerance of Arabidopsis seedlings
Yuxin Peng, Lingmin Jiang, Doeun Jeon, Donghyun Cho, Youngmin Kim, Cha Young Kim, Ju Huck Lee, Jiyoung Lee
Plant Physiology and Biochemistry.2024; 207: 108415. CrossRef
Two microbes assisting Miscanthus floridulus in remediating multi-metal(loid)s-contaminated soil
Yunhua Xiao, Jingjing Ma, Rui Chen, Sha Xiang, Bo Yang, Liang Chen, Jun Fang, Shuming Liu
Environmental Science and Pollution Research.2024; 31(20): 28922. CrossRef
Improving plant salt tolerance through Algoriphagus halophytocola sp. nov., isolated from the halophyte Salicornia europaea
Yuxin Peng, Dong Hyun Cho, Zalfa Humaira, Yu Lim Park, Ki Hyun Kim, Cha Young Kim, Jiyoung Lee
Frontiers in Microbiology.2024;[Epub] CrossRef
Detection of human pathogenic bacteria in rectal DNA samples from Zalophus californianus in the Gulf of California, Mexico
Francesco Cicala, David Ramírez-Delgado, Ricardo Gómez-Reyes, Marcel Martínez-Porchas, Jorge Rojas-Vargas, Liliana Pardo-López, Alexei F. Licea-Navarro
Scientific Reports.2022;[Epub] CrossRef
Genome Insights into the Novel Species Jejubacter calystegiae, a Plant Growth-Promoting Bacterium in Saline Conditions
Ling Min Jiang, Yong Jae Lee, Ho Le Han, Myoung Hui Lee, Jae Cheol Jeong, Cha Young Kim, Suk Weon Kim, Ji Young Lee
Diversity.2021; 13(1): 24. CrossRef
Pedobacter endophyticus sp. nov., an endophytic bacterium isolated from Carex pumila
Yuxin Peng, Lingmin Jiang, Jiyoon Seo, Zhun Li, Hanna Choe, Jae Cheol Jeong, Suk Weon Kim, Young-Min Kim, Cha Young Kim, Jiyoung Lee
International Journal of Systematic and Evolutionary Microbiology .2021;[Epub] CrossRef
The Changing Face of the Family Enterobacteriaceae (Order: “ Enterobacterales ”): New Members, Taxonomic Issues, Geographic Expansion, and New Diseases and Disease Syndromes
J. Michael Janda, Sharon L. Abbott
Clinical Microbiology Reviews.2021;[Epub] CrossRef

A rule governing the FtsH-mediated proteolysis of the MgtC virulence protein from Salmonella enterica serovar Typhimurium: Jonghyun Baek , Eunna Choi , Eun-Jin Lee; J. Microbiol. 2018;56(8):565-570. Published online July 25, 2018; DOI: https://doi.org/10.1007/s12275-018-8245-6

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Abstract

A tightly controlled turnover of membrane proteins is required for lipid bilayer stability, cell metabolism, and cell viability. Among the energy-dependent AAA+ proteases in Salmonella, FtsH is the only membrane-bound protease that contributes to the quality control of membrane proteins. FtsH preferentially degrades the C-terminus or N-terminus of misfolded, misassembled, or damaged proteins to maintain physiological functions. We found that FtsH hydrolyzes the Salmonella MgtC virulence protein when we substitute the MgtC 226th Trp, which is well conserved in other intracellular pathogens and normally protects MgtC from the FtsH-mediated proteolysis. Here we investigate a rule determining the FtsHmediated proteolysis of the MgtC protein at Trp226 residue. Substitution of MgtC tryptophan 226th residue to alanine, glycine, or tyrosine leads to MgtC proteolysis in a manner dependent on the FtsH protease whereas substitution to phenylalanine, methionine, isoleucine, leucine, or valine resists MgtC degradation by FtsH. These data indicate that a large and hydrophobic side chain at 226th residue is required for protection from the FtsH-mediated MgtC proteolysis.

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Edwardsiella piscicida requires SecY homeostasis facilitated by FtsH and YccA for stress resistance and virulence
Qingjuan Wu, Aijun Tian, Jiarui Xu, Qingjian Fang, Huiqin Huang, Yonghua Hu
Aquaculture.2024; 582: 740528. CrossRef
For Someone, You Are the Whole World: Host-Specificity of Salmonella enterica
Anastasiya V. Merkushova, Anton E. Shikov, Anton A. Nizhnikov, Kirill S. Antonets
International Journal of Molecular Sciences.2023; 24(18): 13670. CrossRef
Edwardsiella piscicida YccA: A novel virulence factor essential to membrane integrity, mobility, host infection, and host immune response
Mengru Jin, Jiaojiao He, Jun Li, Yonghua Hu, Dongmei Sun, Hanjie Gu
Fish & Shellfish Immunology.2022; 126: 318. CrossRef
FtsH is required for protein secretion homeostasis and full bacterial virulence in Edwardsiella piscicida
Wei Wang, Jiatiao Jiang, Hao Chen, Yuanxing Zhang, Qin Liu
Microbial Pathogenesis.2021; 161: 105194. CrossRef
RNase G controls tpiA mRNA abundance in response to oxygen availability in Escherichia coli
Jaejin Lee, Dong-Ho Lee, Che Ok Jeon, Kangseok Lee
Journal of Microbiology.2019; 57(10): 910. CrossRef
The coordinated action of RNase III and RNase G controls enolase expression in response to oxygen availability in Escherichia coli
Minho Lee, Minju Joo, Minji Sim, Se-Hoon Sim, Hyun-Lee Kim, Jaejin Lee, Minkyung Ryu, Ji-Hyun Yeom, Yoonsoo Hahn, Nam-Chul Ha, Jang-Cheon Cho, Kangseok Lee
Scientific Reports.2019;[Epub] CrossRef

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

5’ Untranslated Region of the Pseudomonas putida WCS358 Stationary Phase Sigma Factor rpoS mRNA is Involved in RpoS Translational Regulation: Branko Jovcic , Iris Bertani , Vittorio Venturi , Ljubisa Topisirovic , Milan Kojic; J. Microbiol. 2008;46(1):56-61.; DOI: https://doi.org/10.1007/s12275-007-0127-2

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Abstract: The σS subunit of RNA polymerase is a central regulator which governs the expression of a host of stationary phase-induced and osmotically regulated genes in Gram-negative bacteria. The Pseudomonas putida rpoS gene is transcribed as a monocistronic rpoS mRNA with a 368 nucleotide-long 5’ untranslated region (5’ UTR). In this study, we investigate the posttranscriptional control of RpoS synthesis using rpoS-lacZ transcriptional and translational fusions consisting of the native promoter and deletions of 5’ UTR or insertion into UTR. The differing activity of constructed translational fusions strongly indicated that the 5’ UTR is involved in the translational regulation of RpoS expression in the stationary phase. The results obtained herein demonstrated that the structure of UTR performs an important function in the translational regulation of the rpoS gene.

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