Journal of Microbiology

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The human symbiont Bacteroides thetaiotaomicron promotes diet-induced obesity by regulating host lipid metabolism: Sang-Hyun Cho , Yong-Joon Cho , Joo-Hong Park; J. Microbiol. 2022;60(1):118-127. Published online December 29, 2021; DOI: https://doi.org/10.1007/s12275-022-1614-1

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The gut microbiome plays an important role in lipid metabolism. Consumption of a high-fat diet (HFD) alters the bacterial communities in the gut, leading to metabolic disorders. Several bacterial species have been associated with diet-induced obesity, nonalcoholic fatty liver disease, and metabolic syndrome. However, the mechanisms underlying the control of lipid metabolism by symbiotic bacteria remain elusive. Here, we show that the human symbiont Bacteroides thetaiotaomicron aggravates metabolic disorders by promoting lipid digestion and absorption. Administration of B. thetaiotaomicron to HFD-fed mice promoted weight gain, elevated fasting glucose levels, and impaired glucose tolerance. Furthermore, B. thetaiotaomicron treatment upregulated the gene expression of the fatty acid transporter and increased fatty acid accumulation in the liver. B. thetaiotaomicron inhibits expression of the gene encoding a lipoprotein lipase inhibitor, angiopoietin-like protein 4 (ANGPTL4), thereby increasing lipase activity in the small intestine. In particular, we found that B. thetaiotaomicron induced the expression of hepcidin, the master regulator of iron metabolism and an antimicrobial peptide, in the liver. Hepcidin treatment resulted in a decrease in ANGPTL4 expression in Caco-2 cells, whereas treatment with an iron chelator restored ANGPTL4 expression in hepcidin- treated cells. These results indicate that B. thetaiotaomicron- mediated regulation of iron storage in intestinal epithelial cells may contribute to increased fat deposition and impaired glucose tolerance in HFD-fed mice.

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Integrating transcriptomics and Microbiomics to unravel the regulatory effects of Anji white tea on lipid metabolism in HFD-induced obese mice
Zhenyu Wang, Yifang Zhang, Xiaolei Shi, Xiaojun Li, Shangxiong Qi, Chunli Hu, Jin Zhao
Food Research International.2025; 206: 116101. CrossRef
Effects of dietary lipid and protein levels on metamorphosis, growth, metabolism and gut microbiota of tadpole (Lithobates catesbeianus)
Bo Zhu, Lei Zhong, Chuang Shao, Wenjie Xu, Shuhui Xiang, Shuiquan Fu, Yi Hu
Aquaculture.2024; 587: 740900. CrossRef
Beneficial metabolic effects of PAHSAs depend on the gut microbiota in diet-induced obese mice but not in chow-fed mice
Jennifer Lee, Kerry Wellenstein, Ali Rahnavard, Andrew T. Nelson, Marlena M. Holter, Bethany P. Cummings, Vladimir Yeliseyev, Angela Castoldi, Clary B. Clish, Lynn Bry, Dionicio Siegel, Barbara B. Kahn
Proceedings of the National Academy of Sciences.2024;[Epub] CrossRef
Anti-obesity activity of human gut microbiota Bacteroides stercoris KGMB02265
Seoung Woo Ryu, Jeong Chan Moon, Byeong Seob Oh, Seung Yeob Yu, Jeong Eun Bak, Eun Seo Heo, Jae-Ho Jeong, Ju Huck Lee
Archives of Microbiology.2024;[Epub] CrossRef
Bacteroides thetaiotaomicron ameliorates mouse hepatic steatosis through regulating gut microbial composition, gut-liver folate and unsaturated fatty acids metabolism
Hu Li, Xue-Kai Wang, Mei Tang, Lei Lei, Jian-Rui Li, Han Sun, Jing Jiang, Biao Dong, Hong-Ying Li, Jian-Dong Jiang, Zong-Gen Peng
Gut Microbes.2024;[Epub] CrossRef
Gut microbiota and metabolic modulation by supplementation of polysaccharide-producing Bacillus licheniformis from Tibetan Yaks: A comprehensive multi-omics analysis
Zhibo Zeng, Chuxian Quan, Shimeng Zhou, Saisai Gong, Mudassar Iqbal, Muhammad Fakhar-e-Alam Kulyar, Shah Nawaz, Kewei Li, Jiakui Li
International Journal of Biological Macromolecules.2024; 254: 127808. CrossRef
Insights from metagenomics into gut microbiome associated with acute coronary syndrome therapy
Yuee Guan, Shuru Zhao, Jing Li, Wenqian Zhang, Zhonghao Guo, Yi Luo, Xiaofei Jiang, Jun Li, Jianxiong Liu, Xi Chen, Zicheng Zhao, Zhe Zhang
Frontiers in Microbiology.2024;[Epub] CrossRef
Whole genome sequencing of mouse lines divergently selected for fatness (FLI) and leanness (FHI) revealed several genetic variants as candidates for novel obesity genes
Martin Šimon, Špela Mikec, Santosh S. Atanur, Janez Konc, Nicholas M. Morton, Simon Horvat, Tanja Kunej
Genes & Genomics.2024; 46(5): 557. CrossRef
Extract of Gardenia jasminoides Ellis Attenuates High-Fat Diet-Induced Glycolipid Metabolism Disorder in Rats by Targeting Gut Microbiota and TLR4/Myd88/NF-κB Pathway
Chenghao Lv, Xin Liu, Shiyun Chen, Yuhang Yi, Xinnian Wen, Tao Li, Si Qin
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A microbial causal mediation analytic tool for health disparity and applications in body mass index
Chan Wang, Jiyoung Ahn, Thaddeus Tarpey, Stella S. Yi, Richard B. Hayes, Huilin Li
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Hwan-Hee Jang, Hwayoung Noh, Gichang Kim, Su-Yeon Cho, Hyeon-Jeong Kim, Jeong-Sook Choe, Jeongseon Kim, Augustin Scalbert, Marc J. Gunter, Oran Kwon, Hyesook Kim
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Impact of diet and host genetics on the murine intestinal mycobiome
Yask Gupta, Anna Lara Ernst, Artem Vorobyev, Foteini Beltsiou, Detlef Zillikens, Katja Bieber, Simone Sanna-Cherchi, Angela M. Christiano, Christian D. Sadik, Ralf J. Ludwig, Tanya Sezin
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Effects of OsomeFood Clean Label plant-based meals on the gut microbiome
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Consumption of Antioxidant-Rich “Cerrado” Cashew Pseudofruit Affects Hepatic Gene Expression in Obese C57BL/6J High Fat-Fed Mice
Mariana Buranelo Egea, Gavin Pierce, Si-Hong Park, Sang-In Lee, Fabienne Heger, Neil Shay
Foods.2022; 11(17): 2543. CrossRef
Host—microbial interactions in metabolic diseases: from diet to immunity
Ju-Hyung Lee, Joo-Hong Park
Journal of Microbiology.2022; 60(6): 561. CrossRef

A study of P release from Fe-P and Ca-P via the organic acids secreted by Aspergillus niger: Da Tian , Liyan Wang , Jun Hu , Liangliang Zhang , Ningning Zhou , Jingjing Xia , Meiyue Xu , Kianpoor Kalkhajeh Yusef , Shimei Wang , Zhen Li , Hongjian Gao; J. Microbiol. 2021;59(9):819-826. Published online August 12, 2021; DOI: https://doi.org/10.1007/s12275-021-1178-5

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Abstract

Phosphate solubilizing fungi (PSF) have been widely applied to dissolve insoluble phosphates (IPs). However, the PSF usually demonstrates a different phosphate solubilizing capacity for various IPs. This study explored the mechanisms of Aspergillus niger for the dissolution of ferric phosphate (FePO4, Fe-P), and tricalcium phosphate (Ca3[PO4]2, Ca-P) regarding the tricarboxylic acid (TCA) cycle. Aspergillus niger has higher phosphorus (P) content released from Ca-P, reached the maximum value of 861 mg/L after seven days of incubation, compared with the 169 mg/L from Fe-P. Oxalic acid promoted the release of P from Ca-P through the formation of calcium oxalate. The presence of Fe-P can stimulate A. niger to secrete large amounts of citric acid, confirmed by the enhancement of citrate synthase (CS) activity. However, citric acid only promotes 0.5% of P released from Fe-P. Meanwhile, although oxalic acid still dominates the release of P from Fe-P, its abundance was significantly declined. In contrast, oxalic acid also shows a higher P release ratio in Ca-P than citric acid, i.e., 36% vs. 22%. This study points to the future usage of A. niger to dissolve IPs in soil required to enhance oxalic acid secretion.

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Mechanism of A. oleivorans S4 treating soluble phosphorus deficiency and hydrocarbon contamination simultaneously
Panpan Wang, Chaoqi Chen, Kejun Liao, Yue Tao, Yaojia Fu, Lanzhou Chen
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Heavy Metal Remediation Using Phosphate-Solubilizing Fungi: From Bioprocess to Application
Da Tian, Shuo Zhang, Dechao Wang, Liangliang Zhang, Haoming Chen, Xinxin Ye
Agronomy.2024; 14(11): 2638. CrossRef
Lead remediation by geological fluorapatite combined with Penicillium Oxalicum and Red yeast
Qiang Guan, Xiaohui Cheng, Yue He, Yifan Yan, Lei Zhang, Zhan Wang, Liangliang Zhang, Da Tian
Microbial Cell Factories.2024;[Epub] CrossRef
Application of phosphogypsum and phosphate-solubilizing fungi to Pb remediation: From simulation to in vivo incubation
Lingzi Meng, Kejin Ding, Yige Qiu, Yunhui Chen, Hongxun Huo, Dan Yu, Da Tian, Zhen Li
Science of The Total Environment.2024; 933: 173171. CrossRef
Improvement of fungal extraction of phosphorus from sewage sludge ash by Aspergillus niger using sludge filtrate as nutrient substrate
Long Su, Lingyu Hu, Qinghong Sui, Chengcheng Ding, Di Fang, Lixiang Zhou
Waste Management.2023; 157: 25. CrossRef
The Regulation of Phosphorus Release by Penicillium chrysogenum in Different Phosphate via the TCA Cycle and Mycelial Morphology
Liyan Wang, Da Tian, Xiaoru Zhang, Mingxue Han, Xiaohui Cheng, Xinxin Ye, Chaochun Zhang, Hongjian Gao, Zhen Li
Journal of Microbiology.2023; 61(8): 765. CrossRef
Nematophagous Fungi: A Review of Their Phosphorus Solubilization Potential
Marcos Vera-Morales, Segundo E. López Medina, Jaime Naranjo-Morán, Adela Quevedo, María F. Ratti
Microorganisms.2023; 11(1): 137. CrossRef
Bioleaching rare earth elements from coal fly ash by Aspergillus niger
Juanjuan Ma, Shuyan Li, Jinxi Wang, Shuting Jiang, Balaji Panchal, Yuzhuang Sun
Fuel.2023; 354: 129387. CrossRef
The Production of Oxalate by Aspergillus niger under Different Lead Concentrations
Yijun Huang, Liangliang Zhang, Shijia Yuan, Wenpei Liu, Chaochun Zhang, Da Tian, Xinxin Ye
Agronomy.2023; 13(4): 1182. CrossRef
Characterization and genome analysis of Acinetobacter oleivorans S4 as an efficient hydrocarbon-degrading and plant-growth-promoting rhizobacterium
Panpan Wang, Haiying Wei, Tan Ke, Yaojia Fu, Yuyang Zeng, Chaoqi Chen, Lanzhou Chen
Chemosphere.2023; 331: 138732. CrossRef
Electron microscopic imaging and NanoSIMS investigation on physiological responses of Aspergillus niger under Pb(II) and Cd(II) stress
Shang Pan, Zhaoyan Li, Jiayi Wang, Xuefei Li, Lingzi Meng, Yunhui Chen, Mu Su, Zhen Li
Frontiers in Bioengineering and Biotechnology.2023;[Epub] CrossRef
Lead remediation is promoted by phosphate-solubilizing fungi and apatite via the enhanced production of organic acid
Da Tian, Xiaoru Zhang, Liyan Wang, Mingxue Han, Chaochun Zhang, Xinxin Ye
Frontiers in Bioengineering and Biotechnology.2023;[Epub] CrossRef
Screening of calcium- and iron-targeted phosphorus solubilizing fungi for agriculture production
Xin Zhang, Aravindan Rajendran, Sarah Grimm, Xiao Sun, Hongjian Lin, Ruo He, Bo Hu
Rhizosphere.2023; 26: 100689. CrossRef
Evaluating the survival of Aspergillus niger in a highly polluted red soil with addition of Phosphogypsum and bioorganic fertilizer
Lingzi Meng, Shang Pan, Limin Zhou, Choochad Santasup, Mu Su, Da Tian, Zhen Li
Environmental Science and Pollution Research.2022; 29(50): 76446. CrossRef
Phosphorus-Solubilizing Capacity of Mortierella Species Isolated from Rhizosphere Soil of a Poplar Plantation
Yue Sang, Long Jin, Rui Zhu, Xing-Ye Yu, Shuang Hu, Bao-Teng Wang, Hong-Hua Ruan, Feng-Jie Jin, Hyung-Gwan Lee
Microorganisms.2022; 10(12): 2361. CrossRef
Remediation of Lead-Contaminated Water by Red Yeast and Different Types of Phosphate
Da Tian, Xiaohui Cheng, Liyan Wang, Jun Hu, Ningning Zhou, Jingjing Xia, Meiyue Xu, Liangliang Zhang, Hongjian Gao, Xinxin Ye, Chaochun Zhang
Frontiers in Bioengineering and Biotechnology.2022;[Epub] CrossRef
Decomposition of Maize Straw between Two Phosphate Solubilizing Fungi: Aspergillus Niger and Penicillium Chrysogenum
Liyan Wang, Jun Hu, Hao Guan, Da Tian, Hongjian Gao, C. Yang, H. Chen, P. Duan, F. Jiao, C. Wen
E3S Web of Conferences.2022; 350: 01028. CrossRef
The Utilization of Phosphogypsum as a Sustainable Phosphate-Based Fertilizer by Aspergillus niger
Da Tian, Jingjing Xia, Ningning Zhou, Meiyue Xu, Xiang Li, Liangliang Zhang, Shuhua Du, Hongjian Gao
Agronomy.2022; 12(3): 646. CrossRef
Remediation of Lead Contamination by Aspergillus niger and Phosphate Rocks under Different Nitrogen Sources
Yi Feng, Liangliang Zhang, Xiang Li, Liyan Wang, Kianpoor Kalkhajeh Yusef, Hongjian Gao, Da Tian
Agronomy.2022; 12(7): 1639. CrossRef
Aspergillus nigerEnhances Organic and Inorganic Phosphorus Release from Wheat Straw by Secretion of Degrading Enzymes and Oxalic Acid
Liyan Wang, Hao Guan, Jun Hu, Yi Feng, Xiang Li, Kianpoor Kalkhajeh Yusef, Hongjian Gao, Da Tian
Journal of Agricultural and Food Chemistry.2022; 70(35): 10738. CrossRef
A Study of Phosphate Solubilizing Capacity by Penicillium Aurantiogriseum under Different Carbon and Nitrogen Resources
Jun Hu, Liyan Wang, Liangliang Zhang, Hongjian Gao, Da Tian, C. Yang, H. Chen, P. Duan, F. Jiao, C. Wen
E3S Web of Conferences.2022; 350: 03002. CrossRef
Phosphorus biogeochemistry regulated by carbonates in soil
Yuanyuan Geng, Shang Pan, Lin Zhang, Jingjing Qiu, Kun He, Hongjian Gao, Zhen Li, Da Tian
Environmental Research.2022; 214: 113894. CrossRef

Raman spectroscopy reveals alteration of spore compositions under different nutritional conditions in Lysinibacillus boronitolerans YS11: Youngung Ryu , Minyoung Hong , Soo Bin Kim , Tae Kwon Lee , Woojun Park; J. Microbiol. 2021;59(5):491-499. Published online March 29, 2021; DOI: https://doi.org/10.1007/s12275-021-0679-6

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Abstract

Little is known about final spores components when bacteria undergo sporulation under different nutrient conditions. Different degrees of resistance and germination rates were observed in the three types of spores of Lysinibacillus boronitolerans YS11 (SD, Spores formed in Difco sporulation mediumTM; SC and SF, Spores formed in an agricultural byproduct medium with 10 mM CaCl2 and with 10 mM FeSO4, respectively). Stronger UV resistance was recorded for SF with 1.8–2.3-fold greater survival than SC and SD under UV treatment. The three spore types showed similar heat resistances at 80°C, but survival rates of SC and SD were much higher (~1,000 times) than those of SF at 90°C. However, germination capacity of SF was 20% higher than those of SD and SC on Luria-Bertani agar plates for 24 h. SF germinated more rapidly in a liquid medium with high NaCl concentrations than SC and SD, but became slower under alkaline conditions. Raman spectroscopy was used to analyze the heterogeneities in the three types of vegetative cells and their spores under different nutritional conditions. Exponentially grown-each vegetative cells had different overall Raman peak values. Raman peaks of SC, SD, and SF also showed differences in adenine and amide III compositions and nucleic acid contents. Our data along with Raman spectroscopy provided the evidence that spores formed under under different growth conditions possess very different cellular components, which affected their survival and germination rates.

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Alleviation of H2O2 toxicity by extracellular catalases in the phycosphere of Microcystis aeruginosa
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Functional and structural characterization of Deinococcus radiodurans R1 MazEF toxin-antitoxin system, Dr0416-Dr0417: Immanuel Dhanasingh , Eunsil Choi , Jeongeun Lee , Sung Haeng Lee , Jihwan Hwang; J. Microbiol. 2021;59(2):186-201. Published online February 1, 2021; DOI: https://doi.org/10.1007/s12275-021-0523-z

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Abstract

In prokaryotes, toxin-antitoxin (TA) systems are commonly found. They likely reflect the adaptation of pathogenic bacteria or extremophiles to various unfavorable environments by slowing their growth rate. Genomic analysis of the extremophile Deinococcus radiodurans R1 revealed the presence of eight type II TA systems, including the genes dr0417, dr0660, dr1530, dr0690, and dr1807. Expression of these toxin genes led to inhibition of Escherichia coli growth, whereas their antidote antitoxins were able to recover the growth defect. Remarkably, Dr0417 (DrMazF) showed endoribonuclease activity toward rRNAs as well as mRNAs, as determined by in vivo and in vitro RNA cleavage assays, and this activity was inhibited by Dr0416 (DrMazE). It was also found that the expression of dr0416-0417 module is directly regulated by the DrMazE-MazF complex. Furthermore, this TA module was induced under stress conditions and plays an important role in survival. To understand the regulatory mechanism at the molecular level, we determined the first high-resolution structures of DrMazF alone and of the DrMazE-MazF complex. In contrast with the hetero-hexameric state of typical MazEMazF complexes found in other species, DrMazE-MazF crystal structure consists of a hetero-trimer, with the DNA-binding domain of DrMazE undergoing self-cleavage at the flexible linker loop. Our structure revealed that the unique residue R54 provides an additional positive charge to the substratebinding pocket of DrMazF, its mutation significantly affects the endonuclease activity. Thus, our work reports the unique structural and biochemical features of the DrMazE-MazF system.

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Focused Overview of Mycobacterium tuberculosis VapBC Toxin–Antitoxin Systems Regarding Their Structural and Functional Aspects: Including Insights on Biomimetic Peptides
Sung-Min Kang
Biomimetics.2023; 8(5): 412. CrossRef
Functional characterization of HigBA toxin-antitoxin system in an Arctic bacterium, Bosea sp. PAMC 26642
Eunsil Choi, Ahhyun Huh, Changmin Oh, Jeong-Il Oh, Ho Young Kang, Jihwan Hwang
Journal of Microbiology.2022; 60(2): 192. CrossRef
Identification and characterization of the type II toxin-antitoxin systems in the carbapenem-resistant Acinetobacter baumannii
Alireza Japoni-Nejad, Elnaz Harifi Mood, Parastoo Ehsani, Soroush Sardari, Fatemah Sadeghpour Heravi, Saeid Bouzari, Nader Shahrokhi
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Chryseolinea soli sp. nov., isolated from soil: Shin Ae Lee , Yiseul Kim , Mee-Kyung Sang , Jaekyeong Song , Soon-Wo Kwon , Hang-Yeon Weon; J. Microbiol. 2019;57(2):122-126. Published online January 31, 2019; DOI: https://doi.org/10.1007/s12275-019-8562-4

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Abstract

A yellow-colored bacterium with gliding motility, strain KIS68-18T, was isolated from a soil sample at Bijin Island in Tongyeong city, Republic of Korea. The cells were strictly aerobic, Gram-staining-negative, non-spore-forming, and rod-shaped. The strain grew at the range of 10–35°C (optimum, 25–30°C), pH 5.5–8.0 (optimum, 6.0–7.5), and 0–0.5% (w/v) NaCl. A phylogenetic analysis based on 16S rRNA gene sequences revealed that strain KIS68-18T was closely related to Chryseolinea serpens DSM 24574T (98.9%) and had low sequence similarities (below 92.6%) with other members of the family ‘Cytophagaceae’ in the phylum Bacteroidetes. The major respiratory quinone system was MK-7 and the predominant cellular fatty acids were C16:1 ω5c (38.8%), iso-C15:0 (18.5%), and summed feature 3 (C16:1 ω7c and/or C16:1 ω6c, 10.6%). The polar lipids consisted of phosphatidylethanolamine, one unidentified phospholipid, three unidentified aminophospholipids, two unidentified aminolipids, and five unidentified lipids. The DNA G + C content was 50.9%. Based on the phylogenetic, physiological, and chemotaxonomic data, stain KIS68-18T represents a novel species of the genus Chryseolinea, for which the name Chryseolinea soli sp. nov. is proposed. The type strain of Chryseolinea soli is KIS68-18T (= KACC 17327T = NBRC 113100T).

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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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Isolation and characterization of Aspergillus flavus strains in China: Firew Tafesse Mamo , Bo Shang , Jonathan Nimal Selvaraj , Yan Wang , Yang Liu; J. Microbiol. 2018;56(2):119-127. Published online February 2, 2018; DOI: https://doi.org/10.1007/s12275-018-7144-1

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Abstract

Important staple foods (peanuts, maize and rice) are susceptible to contamination by aflatoxin (AF)-producing fungi such as Aspergillus flavus. The objective of this study was to explore non-aflatoxin-producing (atoxigenic) A. flavus strains as biocontrol agents for the control of AFs. In the current study, a total of 724 A. flavus strains were isolated from different regions of China. Polyphasic approaches were utilized for species identification. Non-aflatoxin and non-cyclopiazonic acid (CPA)-producing strains were further screened for aflatoxin B1 (AFB1) biosynthesis pathway gene clusters using a PCR assay. Strains lacking an amplicon for the regulatory gene aflR were then analyzed for the presence of the other 28 biosynthetic genes. Only 229 (32%) of the A. flavus strains were found to be atoxigenic. Smaller (S) sclerotial phenotypes were dominant (51%) compared to large (L, 34%) and non-sclerotial (NS, 15%) phenotypes. Among the atoxigenic strains, 24 strains were PCR-negative for the fas-1 and aflJ genes. Sixteen (67%) atoxigenic A. flavus strains were PCRnegative for 10 or more of the biosynthetic genes. Altogether, 18 new PCR product patterns were observed, indicating great diversity in the AFB1 biosynthesis pathway. The current study demonstrates that many atoxigenic A. flavus strains can be isolated from different regions of China. In the future laboratory as well as field based studies are recommended to test these atoxigenic strains as biocontrol agents for aflatoxin contamination.

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Abstract

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Abstract

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Functional characterization of the cutI gene for the transcription of carbon monoxide dehydrogenase genes in Mycobacterium sp. strain JC1 DSM 3803: Jae Ho Lee , Sae Woong Park , Young Min Kim , Jeong-Il Oh; J. Microbiol. 2017;55(1):31-36. Published online December 30, 2016; DOI: https://doi.org/10.1007/s12275-017-6572-7

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Abstract

Carbon monoxide dehydrogenase (CO-DH) in Mycobacterium sp. strain JC1 is a key enzyme for the carboxydotrophic growth, when carbon monoxide (CO) is supplied as a sole source of carbon and energy. This enzyme is also known to act as nitric oxide dehydrogenase (NO-DH) for the detoxification of NO. Several accessory genes such as cutD, cutE, cutF, cutG, cutH, and cutI, are clustered together with two copies of the CO-DH structural genes (cutB1C1A1 and cutB2C2A2) in Mycobacterium sp. strain JC1 and are well conserved in carboxydotrophic mycobacteria. Transcription of the CO-DH structural and accessory genes was demonstrated to be increased significantly by acidified sodium nitrate as a source of NO. A cutI deletion (ΔcutI) mutant of Mycobacterium sp. strain JC1 was generated to identity the function of CutI. Lithoautotrophic growth of the ΔcutI mutant was severely affected in mineral medium supplemented with CO, while the mutant grew normally with glucose. Western blotting, CO-DH activity staining, and CO-DH-specific enzyme assay revealed a significant decrease in the cellular level of CO-DH in the ΔcutI mutant. Northern blot analysis and promoter assay showed that expression of the cutB1 and cutB2 genes was significantly reduced at the transcriptional level in the ΔcutI mutant, compared to that of the wildtype strain. The ΔcutI mutant was much more susceptible to NO than was the wild type.

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Characterization of a MHYT domain-coupled transcriptional regulator that responds to carbon monoxide
Gonzalo Durante-Rodríguez, Sofía de Francisco-Polanco, José Luis García, Eduardo Díaz
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Siphonobacter intestinalis sp. nov., a bacterium isolated from the feces of Pseudorhynchus japonicus: Shin Ae Lee , Jeong Myeong Kim , Jae-Hyung Ahn , Jae-Ho Joa , Soo-Jin Kim , Mee-Kyung Sang , Jaekyeong Song , Soon-Wo Kwon , Hang-Yeon Weon; J. Microbiol. 2016;54(11):709-712. Published online October 29, 2016; DOI: https://doi.org/10.1007/s12275-016-6451-7

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Abstract

Strain 63MJ-2T was isolated from the feces of broad-winged katydid (Pseudorhynchus japonicus) collected in Korea. The 16S rRNA gene sequence of this strain showed the highest sequence similarity with that of Siphonobacter aquaeclarae P2T (96.1%) and had low similarities (below 86.3%) with those of other members of family ‘Flexibacteraceae’. The strain 63MJ-2T is a strictly aerobic, Gram-stain-negative, non-motile, rod-shaped bacterium. The strain grew at 4–35°C (optimum, 25–30°C), pH of 5.0–9.0 (optimum, 6.0–7.0), and 0–2.0% (optimum, 1.0–2.0) (w/v) NaCl. The DNA G+C content of strain 63MJ-2T was 43.5 mol%. The major fatty acids were C16:1 ω5c (42.5%), iso-C17:0 3-OH (18.7%), and summed feature 3 (iso-C15:0 2-OH and/or C16:1 ω7c, 18.0%). The major menaquinone was MK-7 and polar lipids were phosphatidylethanolamine, six unknown aminolipids, and five unknown lipids. Based on the evidence from our polyphasic taxonomic study, we conclude that strain 63MJ-2T should be classified as a novel species of the genus Siphonobacter, and propose the name Siphonobacter intestinalis sp. nov. The type strain is 63MJ-2T (=KACC 18663T =NBRC 111883T).

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Siphonobacter curvatus sp. nov., isolated from a freshwater river
Yunho Lee, Che Ok Jeon
International Journal of Systematic and Evolutionary Microbiology .2018; 68(6): 1925. CrossRef

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

Sphingomonas parvus sp. nov. isolated from a ginseng-cultivated soil: Jae-Hyung Ahn , Byoung-chan Kim , Soo-Jin Kim , Geun-Hey Lee , Jaekyeong Song , Soon-Wo Kwon , Hang-Yeon Weon; J. Microbiol. 2015;53(10):673-677. Published online October 2, 2015; DOI: https://doi.org/10.1007/s12275-015-5132-2

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Abstract

Strain GP20-2T was isolated from a soil cultivated with ginseng in Korea. The 16S rRNA gene sequence of this strain showed the highest sequence similarity with Sphingomonas daechungensis CH15-11T (96.7%) and Sphingomonas sediminicola Dae 20T (96.2%) among the type strains. The strain GP20-2T was a strictly aerobic, Gram-negative, non-motile, rod-shaped bacterium that formed very tiny colonies, less than 0.3 mm in diameter after 10 days on R2A agar. The strain grew at 10–35°C (optimum, 35°C), at a pH of 5.0–8.0 (optimum, pH 6.0), and in the absence of NaCl. The DNA G+C content of strain GP20-2T was 67.2 mol%. It contained ubiquinone Q-10 as the major isoprenoid quinone, and summed feature 8 (C18:1ω6c and/or C18:1ω7c, 49.8%) and C16:0 (17.0%) as the major fatty acids. On the basis of evidence from our polyphasic taxonomic study, we concluded that strain GP20-2T should be classified as a novel species of the genus Sphingomonas, for which the name Sphingomonas parvus sp. nov. is proposed. The type strain is GP20-2T (=KACC 12865T =DSM 100456T).

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Markéta Měrková, Markéta Julinová, Josef Houser, Jan Růžička
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Sphingomonas limnosediminicola sp. nov. and Sphingomonas palustris sp. nov., isolated from freshwater environments
Ji Hee Lee, Dae In Kim, Han Na Choe, Soon Dong Lee, Chi Nam Seong
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Journal Article

Application of Response Surface Methodology for Rapid Chrysene Biodegradation by Newly Isolated Marine-derived Fungus Cochliobolus lunatus Strain CHR4D: Jwalant K. Bhatt , Chirag M. Ghevariya , Dushyant R. Dudhagara , Rahul K. Rajpara , Bharti P. Dave; J. Microbiol. 2014;52(11):908-917. Published online October 31, 2014; DOI: https://doi.org/10.1007/s12275-014-4137-6

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Abstract

For the first time, Cochliobolus lunatus strain CHR4D, a marine-derived ascomycete fungus isolated from historically contaminated crude oil polluted shoreline of Alang-Sosiya ship-breaking yard, at Bhavnagar coast, Gujarat has been reported showing the rapid and enhanced biodegradation of chrysene, a four ringed high molecular weight (HMW) polycyclic aromatic hydrocarbon (PAH). Mineral Salt Broth (MSB) components such as ammonium tartrate and glucose along with chrysene, pH and trace metal solution have been successfully optimized by Response Surface Methodology (RSM) using central composite design (CCD). A validated, two-step optimization protocol has yielded a substantial 93.10% chrysene degradation on the 4th day, against unoptimized 56.37% degradation on the 14th day. The results depict 1.65 fold increase in chrysene degradation and 1.40 fold increase in biomass with a considerable decrement in time. Based on the successful laboratory experiments, C. lunatus strain CHR4D can thus be predicted as a potential candidate for mycoremediation of HMW PAHs impacted environments.

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Optimization of anthracene biodegradation by indigenous Trichoderma lixii and Talaromyces pinophilus using response surface methodology
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Thamraa Alshahrani, Ganesh Jethave, Anil Nemade, Yogesh Khairnar, Umesh Fegade, Monali Khachane, Amir Al-Ahmed, Firoz Khan
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Diversity, Lifestyle, Genomics, and Their Functional Role of Cochliobolus, Bipolaris, and Curvularia Species in Environmental Remediation and Plant Growth Promotion under Biotic and Abiotic Stressors
Nasir Ali Khan, Sajjad Asaf, Waqar Ahmad, Rahmatullah Jan, Saqib Bilal, Ibrahim Khan, Abdul Latif Khan, Kyung-Min Kim, Ahmed Al-Harrasi
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Donyez Frikha-Dammak, Jawhar Fakhfakh, Dalel Belhaj, Emna Bouattour, Houda Ayadi, Moncef Chaabouni, Habib Ayadi, Sami Maalej
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Oil-Spill Triggered Shift in Indigenous Microbial Structure and Functional Dynamics in Different Marine Environmental Matrices
C. S. Neethu, C. Saravanakumar, R. Purvaja, R. S. Robin, R. Ramesh
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Biotechnological application of endophytic filamentous bipolaris and curvularia: a review on bioeconomy impact
Louis Bengyella, Sehrish Iftikhar, Kiran Nawaz, Dobgima J. Fonmboh, Elsie L. Yekwa, Robinson C. Jones, Yiboh M. T. Njanu, Pranab Roy
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Biodegradation of anthracene and several PAHs by the marine-derived fungus Cladosporium sp. CBMAI 1237
Willian G. Birolli, Darlisson de A. Santos, Natália Alvarenga, Anuska C.F.S. Garcia, Luciane P.C. Romão, André L.M. Porto
Marine Pollution Bulletin.2018; 129(2): 525. CrossRef
Polycyclic aromatic hydrocarbons (PAHs) at the Gulf of Kutch, Gujarat, India: Occurrence, source apportionment, and toxicity of PAHs as an emerging issue
Rahul K. Rajpara, Dushyant R. Dudhagara, Jwalant K. Bhatt, Haren B. Gosai, Bharti P. Dave
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Research Support, Non-U.S. Gov'ts

Characterization of a Novel Antigen of Mycobacterium tuberculosis K Strain and Its Use in Immunodiagnosis of Tuberculosis: Paul J. Park , Ah Reum Kim , Yangkyo P. Salch , Taeksun Song , Sung Jae Shin , Seung Jung Han , Sang-Nae Cho; J. Microbiol. 2014;52(10):871-878. Published online August 27, 2014; DOI: https://doi.org/10.1007/s12275-014-4235-5

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Abstract

*For correspondence. (S.J. Han) E-mail: hansjung@yuhs.ac / (S.N. Cho) E-mail: raycho@yuhs.ac Paul J. Park, Ah Reum Kim, Yangkyo P. Salch, Taeksun Song, Sung Jae Shin, Seung Jung Han*, and Sang-Nae Cho* Department of Microbiology and Institute for Immunology and Immunological Diseases, Brain Korea 21 Plus Project for the Medical Sciences, Yonsei University College of Medicine, Seoul 120-752, Republic of Korea (Received Apr 16, 2014 / Revised Jul 14, 2014 / Accepted Jul 16, 2014) Journal of Microbiology (2014) Vol. 52, No. 10, pp. 871–878 Copyright 􎨰􀁇2014, The Microbiological Society of Korea DOI 10.1007/s12275-014-4235-5 Characterization of a Novel Antigen of Mycobacterium tuberculosis K strain and Its Use in Immunodiagnosis of Tuberculosis Mycobacterium tuberculosis-specific antigens would be of great value in developing immunodiagnostic tests for tuberculosis (TB), but regional differences in molecular types of the organism may result in antigenic variation, which in turn affects the outcome of the tests. For example, the Beijing strains of M. tuberculosis are prevalent in East Asia, and in particular, the K strain and related strains of the Beijing family, are most frequently isolated during school outbreaks of TB in South Korea. From comparison of genome sequences between M. tuberculosis K strain and the H37Rv strain, a non-Beijing type, we identified a K strain-specific gene, InsB, which has substantial homology with the ESAT-6-like proteins. This study was, therefore, initiated to characterize the InsB protein for its immunogenicity in mice and to confirm its expression in TB patients by detecting antibodies to the protein. The InsB gene was cloned from M. tuberculosis K strain and expressed in Escherichia coli. The recombinant InsB protein was used for immunization of mice. All mice showed strong antibody responses to the InsB protein, and splenocytes stimulated with InsB showed strong IFN-γ and IL-17 responses and a weak IL-2 response, all of which have been implicated in disease expression and used for the immunodiagnosis of TB. Serum samples from TB patients also showed significant antibody responses to the InsB protein as compared to healthy control samples. These results indicate that the InsB protein is an M. tuberculosis K-strain-specific antigen that could further improve the current immunodiagnostic
methods
, especially for the South Korean population.

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Ahreum Kim, Kwang Joo Park, Young Sun Kim, Sang-Nae Cho, Hazel M Dockrell, Yun-Gyoung Hur
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Immunogenicity and Vaccine Potential of InsB, an ESAT-6-Like Antigen Identified in the Highly Virulent Mycobacterium tuberculosis Beijing K Strain
Woo Sik Kim, Hongmin Kim, Kee Woong Kwon, Sang-Nae Cho, Sung Jae Shin
Frontiers in Microbiology.2019;[Epub] CrossRef
Protective Vaccine Efficacy of the Complete Form of PPE39 Protein from Mycobacterium tuberculosis Beijing/K Strain in Mice
Ahreum Kim, Yun-Gyoung Hur, Sunwha Gu, Sang-Nae Cho, Helene F. Rosenberg
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Host immune responses to antigens derived from a predominant strain of Mycobacterium tuberculosis
Yun-Gyoung Hur, Wou Young Chung, Ahreum Kim, Young Sun Kim, Hyon-Suk Kim, Sun-Hee Jang, Yeun Kim, Hyeyoung Lee, Kwang Joo Park, Sang-Nae Cho
Journal of Infection.2016; 73(1): 54. CrossRef
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Morphological and Genetic Characteristics of Newly Crossbred Cauliflower Mushroom (Sparassis latifolia): Hong-Duck Sou , Rhim Ryoo , Sung-Ryul Ryu , Kang-Hyeon Ka , Hyun Park , Sung-Hyun Joo; J. Microbiol. 2013;51(5):552-557. Published online June 25, 2013; DOI: https://doi.org/10.1007/s12275-013-2666-z

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Abstract

Cauliflower mushroom (Sparassis latifolia or S. crispa) is popular for food and medicine. Importance of new varieties of Sparassis was raised and studied widely by protection system of UPOV. In this study, 10 crossbred strains of Sparassis latifolia that specifically expressed distinctive features during basidiocarp formation and mycelium growth were applied to sawdust medium inoculated with S. latifolia mycelia. The 10 crossbred strains were divided into 3 groups on the basis of morphological (size of marginal wave and basidiocarp color) and genetic characteristics. Each phenotype of the parent and crossbred strains represented 3 marginal wave-sizes (large, medium, and small) and 3 color notations (NN155D, 163C, and 8D). Our result suggests that morphological characteristics of cauliflower mushroom can be affected by various environmental and genetic stimuli under artificial conditions such as crossbreed. Also this research showed genetic differences among breeding isolates and their morphological characteristics were correlated with the molecular data within parent and crossed strain.

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