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- Microbial Communities in Semi-consolidated Carbonate Sediments of the Southwest Indian Ridge
- Jiwei Li , Xiaotong Peng , Huaiyang Zhou , Jiangtao Li , Zhilei Sun , Shun Chen
- J. Microbiol. 2014;52(2):111-119. Published online February 1, 2014
- DOI: https://doi.org/10.1007/s12275-014-3133-1
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- 14 Crossref
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Abstract
- White semi-consolidated carbonate sediments attached to black ferromanganese oxide films were collected approximately 50 km west of a newly discovered hydrothermal field near the Southwest Indian Ridge (SWIR). The biodiversity of the prokaryotic communities within the field was examined using clone library-based culture-independent analysis of the exterior black oxides and the interior white carbonates. Subsequent 16S rRNA gene analysis suggested that Gammaproteobacteria, Acidobacteria, and Thaumarchaeota members dominated the bacterial and archaeal clone libraries. To further characterize the metabolic processes within the microbial community, analyses of the amoA (coding the alpha subunit of the ammonia monooxygenase for Archaea) and aprA (coding the alpha subunit of the dissimilatory adenosine-5'-phosphosulfate reductase for the sulfate-reducing and sulfur-oxidizing prokaryotes) functional genes were conducted. The functional gene analysis results suggested that Thaumarchaeota and Alphaproteobacteria members were the potential players that participated in N and S cycles in this marine carbonate sedimentary environment. This paper is the first to describe the microbial communities and their potential metabolic pathways within the semi-consolidated carbonate sediments of the SWIR.
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- An insight into the prokaryotic diversity from a polymetallic nodule-rich region in the Central Indian Ocean Basin using next generation sequencing approach
Shruti Shah, Samir R. Damare, Maria Brenda Luzia Mascarenhas-Pereira, Jayesh Patil, Sneha Parab, Sushil Nair, Arpita Ghosh
Frontiers in Microbiology.2024;[Epub] CrossRef - Biogeography and potential ecological functions of prokaryotes in the hydrothermal and non-hydrothermal field sediments of the Indian Ocean Ridges
Jing Huang, Ping Chen, Yaxin Zhu, Jian Wang, Lei Song, Xiqiu Han, Ying Huang
Frontiers in Marine Science.2023;[Epub] CrossRef - Spatiotemporal dynamics of high and low nucleic acid-content bacterial communities in Chinese coastal seawater: assembly process, co-occurrence relationship and the ecological functions
Wei Hu, Ningning Zheng, Yadi Zhang, Mark Bartlam, Yingying Wang
Frontiers in Microbiology.2023;[Epub] CrossRef - Impact of arsenic on microbial community structure and their metabolic potential from rice soils of West Bengal, India
Himadri Bose, Rajendra Prasad Sahu, Pinaki Sar
Science of The Total Environment.2022; 841: 156486. CrossRef - Microbial diversity and community structure in deep-sea sediments of South Indian Ocean
Daochen Zhu, Sivasamy Sethupathy, Lu Gao, Muhammad Zohaib Nawaz, Weimin Zhang, Jianxiong Jiang, Jianzhong Sun
Environmental Science and Pollution Research.2022; 29(30): 45793. CrossRef - Spatial patterns and co-occurrence networks of microbial communities related to environmental heterogeneity in deep-sea surface sediments around Yap Trench, Western Pacific Ocean
Chenru Zhang, Qian Liu, Xianrong Li, Min Wang, Xiaoshou Liu, Jinpeng Yang, Jishang Xu, Yong Jiang
Science of The Total Environment.2021; 759: 143799. CrossRef - Bacterial and Fungal Diversity in Sediment and Water Column From the Abyssal Regions of the Indian Ocean
Natasha Maria Barnes, Samir R. Damare, Belle Damodara Shenoy
Frontiers in Marine Science.2021;[Epub] CrossRef - High-throughput single-cell cultivation reveals the underexplored rare biosphere in deep-sea sediments along the Southwest Indian Ridge
Beiyu Hu, Bingxue Xu, Juanli Yun, Jian Wang, Bingliang Xie, Caiming Li, Yanghuan Yu, Ying Lan, Yaxin Zhu, Xin Dai, Ying Huang, Li Huang, Jianzhang Pan, Wenbin Du
Lab on a Chip.2020; 20(2): 363. CrossRef - Polyphasic approach revealed complex bacterial community structure and function in deep sea sediment of ultra-slow spreading Southwest Indian Ridge
Rupesh Kumar Sinha, K.P. Krishnan, Femi Anna Thomas, M.B. Binish, Mahesh Mohan, P. John Kurian
Ecological Indicators.2019; 96: 40. CrossRef - Macrofaunal burrowing enhances deep-sea carbonate lithification on the Southwest Indian Ridge
Hengchao Xu, Xiaotong Peng, Shun Chen, Jiwei Li, Shamik Dasgupta, Kaiwen Ta, Mengran Du
Biogeosciences.2018; 15(21): 6387. CrossRef - Lipid Biomarkers Reveal Microbial Communities in Hydrothermal Chimney Structures from the 49.6°E Hydrothermal Vent Field at the Southwest Indian Ocean Ridge
Jijiang Lei, Fengyou Chu, Xiaoguo Yu, Xiaohu Li, Chunhui Tao
Geomicrobiology Journal.2017; 34(6): 557. CrossRef - Fungal communities from the calcareous deep-sea sediments in the Southwest India Ridge revealed by Illumina sequencing technology
Likui Zhang, Manyu Kang, Yangchao Huang, Lixiang Yang
World Journal of Microbiology and Biotechnology.2016;[Epub] CrossRef - Bacterial and archaeal communities in the deep-sea sediments of inactive hydrothermal vents in the Southwest India Ridge
Likui Zhang, Manyu Kang, Jiajun Xu, Jian Xu, Yinjie Shuai, Xiaojian Zhou, Zhihui Yang, Kesen Ma
Scientific Reports.2016;[Epub] CrossRef - Diversity, Biogeography, and Biodegradation Potential of Actinobacteria in the Deep-Sea Sediments along the Southwest Indian Ridge
Ping Chen, Limin Zhang, Xiaoxuan Guo, Xin Dai, Li Liu, Lijun Xi, Jian Wang, Lei Song, Yuezhu Wang, Yaxin Zhu, Li Huang, Ying Huang
Frontiers in Microbiology.2016;[Epub] CrossRef
- An insight into the prokaryotic diversity from a polymetallic nodule-rich region in the Central Indian Ocean Basin using next generation sequencing approach
- Deciphering the Biodiversity of Listeria monocytogenes Lineage III Strains by Polyphasic Approaches
- Hanxin Zhao , Jianshun Chen , Chun Fang , Ye Xia , Changyong Cheng , Lingli Jiang , Weihuan Fang
- J. Microbiol. 2011;49(5):759-767. Published online November 9, 2011
- DOI: https://doi.org/10.1007/s12275-011-1006-4
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- 8 Scopus
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Abstract
- Listeria monocytogenes is a foodborne pathogen of humans and animals. The majority of human listeriosis cases are caused by strains of lineages I and II, while lineage III strains are rare and seldom implicated in human listeriosis. We revealed by 16S rRNA sequencing the special evolutionary status of L. monocytogenes lineage III, which falls between lineages I and II strains of L. monocytogenes and the non-pathogenic species L. innocua and L. marthii in the dendrogram. Thirteen lineage III strains were then characterized by polyphasic approaches. Biochemical reactions demonstrated 8 biotypes, internalin profiling identified 10 internalin types clustered in 4 groups, and multilocus sequence typing differentiated 12 sequence types. These typing schemes show that lineage III strains represent the most diverse population of L. monocytogenes, and comprise at least four subpopulations IIIA-1, IIIA-2, IIIB, and IIIC. The in vitro and in vivo virulence assessments showed that two lineage IIIA-2 strains had reduced pathogenicity, while the other lineage III strains had comparable virulence to lineages I and II. The IIIB strains are phylogenetically distinct from other subpopulations, providing additional evidence that this sublineage represents a novel lineage. The two biochemical reactions L-rhamnose and L-lactate alkalinization, and 10 internalins were identified as potential markers for lineage III subpopulations. This study provides new insights into the biodiversity and population structure of lineage III strains, which are important for understanding the evolution of the L. monocytogenes-L. innocua clade.
- Diversity of Yeasts Associated with Natural Environments in Korea
- Soon Gyu Hong , Kang Hyun Lee , Kyung Sook Bae
- J. Microbiol. 2002;40(1):55-62.
- 35 View
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Abstract
- Biodiversity of yeasts in various natural environments including soils, swamps and plants was investigated. By molecular identification methods based on the partial sequences of 26S rDNA, 69 isolates were assigned to 44 taxa including 27 known species. The remaining 17 taxa could potentially form new species. All of them were classified into Ascomycota, Hymenomycetes, Urediniomycetes and Ustilaginomycetes. Ascomycetous and ustilaginomycetous yeasts were generally isolated from flower samples, and hymenomycetous and urediniomycetous yeasts were generally isolated from soil samples. Distribution of yeast groups exhibited geographical variation. Yeast biodiversity of root soil also varied according to the associated plant species.
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