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Wang L, Xiao Y, Lai W, Jia R, Deng Q, Wang X, Shi H, Yang Y, Zhang B. Micrococcus lacusdianchii sp. nov., an attached bacterium inhibited by metabolites from its symbiotic algae. J Antibiot (Tokyo) 2024; 77:163-169. [PMID: 38148391 DOI: 10.1038/s41429-023-00690-3] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/21/2023] [Revised: 10/31/2023] [Accepted: 11/09/2023] [Indexed: 12/28/2023]
Abstract
A novel actinobacterial strain, designated as JXJ CY 30 T, was isolated from the phycosphere of Microcystis aeruginosa FACHB-905 (Maf) collected from Lake Dianchi, China. The strain was a Gram-stain-positive, aerobic and coccus-shaped actinobacterium. It had alanine, glutamic acid, aspartic acid, and lysine in the peptidoglycan, and mannose, ribose and arabinose in its cell wall sugars, anteiso-C15:0 and iso-C15:0 as the main cellular fatty acids, MK-7 and MK-8 as the major respiratory quinones, and phosphatidylglycerol, diphosphatidylglycerol, phosphatidylinositol, glycolipid, and an unidentified phospholipid as the polar lipids. The DNA G + C content was 73.08%. Its 16 S rRNA gene sequence shared 99.14%, and 98.75% similarities with Micrococcus flavus DSM 19079 T and M. porci KD337-16T, respectively, and ≤98.41% similarities with other type strains of the genus Micrococcus. It formed independent clade with M. flavus DSM 19079 T on the phylogenetic trees. The digital DNA-DNA hybridization and average nucleotide identity values between strain JXJ CY 30 T and M. flavus DSM 19079 T and M. porci KD337-16T were 48.0% and 92.1%, 25.5% and 83.2%, respectively. These data above indicated that strain JXJ CY 30 T represented a new species of the genus Micrococcus, and the species epithet is proposed as Micrococcus lacusdianchii sp. nov. (type strain JXJ CY 30 T = KCTC 49378 T = CGMCC 1.17508 T). Strain JXJ CY 30 T can potentially provide Maf with various nutrients such as available phosphorus and nitrogen, plant hormones, various vitamins and carotenoids for growth, while it was inhibited by metabolites from its symbiotic algae Maf.
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Affiliation(s)
- Le Wang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332005, China
| | - Yao Xiao
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332005, China
| | - Wenxin Lai
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332005, China
| | - Ru Jia
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332005, China
| | - Qinglin Deng
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332005, China
| | - Xin Wang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332005, China
| | - Hongqiu Shi
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332005, China
| | - Yiwen Yang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332005, China.
| | - Binghuo Zhang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332005, China.
- Jiujiang Key Laboratory for the Development and Utilization of Traditional Chinese Medicine resources in Northwest Jiangxi, Jiujiang, China.
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Xiao Y, Du M, Deng Y, Deng Q, Wang X, Yang Y, Zhang B, Zhang YQ. Modulation of growth, microcystin production, and algal-bacterial interactions of the bloom-forming algae Microcystis aeruginosa by a novel bacterium recovered from its phycosphere. Front Microbiol 2024; 15:1295696. [PMID: 38495512 PMCID: PMC10940515 DOI: 10.3389/fmicb.2024.1295696] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 09/17/2023] [Accepted: 02/21/2024] [Indexed: 03/19/2024] Open
Abstract
Harmful algal blooms (HABs) in natural waters are of escalating global concern due to their detrimental impact on environmental health. Emerging evidence indicates that algae-bacteria symbionts can affect HAB features, though much about this interplay remains largely unexplored. The current study isolated a new species of Mucilaginibacter (type strain JXJ CY 39T) from culture biomass of the bloom-causing Microcystis aeruginosa FACHB-905 (Maf) from Lake Dianchi, China. Strain JXJ CY 39T was an aerobic, Gram-stain-negative rod bacterium that grew at 5-38°C, pH 4.0-11.0, and 0-3.0% NaCl. Taxonomic evaluation proposed a new species, with Mucilaginibacter lacusdianchii sp. nov., as the species epithet. Experimental results revealed that strain JXJ CY 39T spurred the growth of Maf by supplying soluble phosphorus and nitrogen during cultivation, despite the unavailability of soluble phosphorus and nitrogen. Additionally, by producing the plant hormone indole-3-acetate, strain JXJ CY 39T possibly impacted Maf's functionality. Results from co-culture experiments with other strains from Maf biomass showed possible effects of strain JXJ CY 39T on the relationship between Maf and other cohabiting bacteria, as well as microcystin toxin production characteristics. Although Maf could foster the growth of strain JXJ CY 39T by supplying organic carbon, the strain's growth could be regulated via specific chemical compounds based on antibiotic assays. Community composition analysis disclosed that this Mucilaginibacter strain positively affected Maf's growth and modified densities and types of bacteria linked to Maf. Overall, these results suggest that the interactions between important HAB-causing organisms and their attached bacteria are complex, dynamic, and may influence the growth characteristics of algae.
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Affiliation(s)
- Yao Xiao
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, China
| | - Mijia Du
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, China
| | - Yang Deng
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China
| | - Qinglin Deng
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, China
| | - Xin Wang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, China
| | - Yiwen Yang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, China
| | - Binghuo Zhang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, China
| | - Yu-Qin Zhang
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China
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Deng QL, Xiao Y, Jia R, Xie X, Wang L, Wang X, Yang JY, Guo QG, Zhang BH. Devosia lacusdianchii sp. nov., an attached bacterium inhibited by metabolites from its symbiotic Microcystis. Antonie Van Leeuwenhoek 2024; 117:12. [PMID: 38170242 DOI: 10.1007/s10482-023-01909-x] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Grants] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/16/2023] [Accepted: 10/21/2023] [Indexed: 01/05/2024]
Abstract
A novel alphaproteobacterial strain JXJ CY 41T was isolated from a culture mass of Microcystis, collected from Lake Dianchi, south-west, China. Strain JXJ CY 41T was gram-strain-negative, aerobic, motile, with rod-shaped cells (0.4-1.0 × 1.7-3.5 μm). It was positive for catalase and starch hydrolysis, negative for oxidase and hydrolysis of Tweens (20, 40, and 80). Growth occurred at 10-44 °C, pH 5.0-10.0, and 0-5.0% (w/v) NaCl. Major fatty acids included C16:0 (28.1%), 11-methyl C18:1 ω7c (36.7%) and C18:1 ω7c (20.8%). Q10 was the sole ubiquinone. The polar lipids were diphosphatidylglycerol, phosphatidylglycerol, glycolipid, and an unidentified lipid. The DNA G + C content was 63.1%. Its 16S rRNA gene sequence showed high similarities with Devosia oryziradicis G19T (99.5%; not validly published), D. yakushimensis Yak96BT (98.3%) and D. ginsengisoli Gsoil 520T (98.1%), and less than 98.1% similarities with other members of the genus Devosia. The digital DNA-DNA hybridization (dDDH) and average nucleotide identity (ANI) values between strain JXJ CY 41T and its 5 closest similar strains were 19.9-24.1% and 75.7-80.5%, respectively. Based on the data above, strain JXJ CY 41T was identified as a novel species of the genus Devosia, for which the epithet Devosia lacusdianchii sp. nov. was proposed. The type strain is JXJ CY 41T (= KCTC 72812T = CGMCC 1.17502T). Strain JXJ CY 41T exhibited different interactions with Microcystis aeruginosa FACHB-905 (Maf) under different conditions, and Maf could control the bacterial cellular density by secreting unknown specific chemical compounds according to its nutritional requirements.
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Affiliation(s)
- Qing-Lin Deng
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, People's Republic of China
| | - Yao Xiao
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, People's Republic of China
| | - Ru Jia
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, People's Republic of China
| | - Xin Xie
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, People's Republic of China
| | - Le Wang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, People's Republic of China
| | - Xin Wang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, People's Republic of China
| | - Jian-Yuan Yang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, People's Republic of China.
| | - Qi-Gen Guo
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, People's Republic of China
| | - Bing-Huo Zhang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, People's Republic of China.
- Jiujiang Key Laboratory for the Development and Utilization of Traditional Chinese Medicine Resources in Northwest Jiangxi, Jiujiang, People's Republic of China.
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Xiao Y, Chen M, Chen J, Mao LN, Peng YR, Gui SS, Zhang BH. Microbacterium kunmingensis sp. nov., an attached bacterium of Microcystis aeruginosa. J Antibiot (Tokyo) 2022; 75:662-670. [PMID: 36167780 DOI: 10.1038/s41429-022-00568-w] [Citation(s) in RCA: 2] [Impact Index Per Article: 1.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 03/04/2022] [Revised: 08/31/2022] [Accepted: 09/12/2022] [Indexed: 11/09/2022]
Abstract
A Gram-stain positive, aerobic, rod-shaped actinobacterial strain designated as JXJ CY 27-2T was isolated from the culture of Microcystis aeruginosa FACHB-905 (Maf) collected from Lake Kunming, southwest China. The isolate was catalase positive, oxidase negative, and able to grow at 10.0-44.0 °C, pH 5.0-10.0 and 0-5.0% NaCl. Based on the 16S rRNA gene sequences, JXJ CY 27-2T showed high similarities of 98.54-98.55% with Microbacterium invictum DSM 19600T, Microbacterium saccharophilum DSM 28107T, and Microbacterium aoyamense DSM 19461T, and less than 98.47% similarities with other members of the genus. Its major cellular fatty acids were anteiso-C17:0 and anteiso-C15:0. The predominant menaquinones were MK-11 and MK-12. The diagnostic diamino acid in the cell wall peptidoglycan was lysine. Whole cell sugars contained mannose, ribose, galactose, rhamnose and arabinose. The polar lipids were diphosphatidylglycerol, phosphatidylglycerol, two unidentified glycolipids, and an unidentified lipid. The DNA G + C content was 69.8%. The digital DNA-DNA hybridization and average nucleotide identity values between strain JXJ CY 27-2T and its three closest similar strains were 18.4-20.3% and 74.9-75.7%, respectively. Based on the above data, strain JXJ CY 27-2T was identified as a new species of the genus Microbacterium, for which the name Microbacterium kunmingensis sp. nov. is proposed. The type strain is JXJ CY 27-2T (=CGMCC 1.17506T = KCTC 49382T). Strain JXJ CY 27-2T could promote the growth of Maf by providing it with available phosphorus, nitrogen and probably other nutrients such as vitamins and indole-3-acetate.
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Affiliation(s)
- Yao Xiao
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, China
| | - Min Chen
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, China
| | - Jian Chen
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, China
| | - Li-Na Mao
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, China
| | - Yi-Ru Peng
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, China
| | - Shan-Shan Gui
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, China
| | - Bing-Huo Zhang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, China.
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Xiao Y, Chen J, Chen M, Deng SJ, Xiong ZQ, Tian BY, Zhang BH. Mycolicibacterium lacusdiani sp. nov., an Attached Bacterium of Microcystis aeruginosa. Front Microbiol 2022; 13:861291. [PMID: 35633692 PMCID: PMC9134240 DOI: 10.3389/fmicb.2022.861291] [Citation(s) in RCA: 4] [Impact Index Per Article: 2.0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 01/24/2022] [Accepted: 03/11/2022] [Indexed: 11/24/2022] Open
Abstract
In eutrophic water, attached bacteria of Microcystis play an important role in the formation, development, and degradation of Microcystis blooms. A novel actinobacterium, designated as JXJ CY 35T, was isolated from the culture mass of Microcystis aeruginosa FACHB-905 (Maf) collected from Lake Dianchi, Yunnan Province, China. Strain JXJ CY 35T was gram-positive, acid-fast staining, aerobic, with short rod-shaped cells, positive for catalase, and negative for oxidase. The isolate was able to grow at 10.0–36.0°C, pH 4.0–10.0, and tolerate up to 5.0% (w/v) NaCl, with optimal growth at 28°C, pH 7.0–8.0, and 0% (w/v) NaCl. Cell-wall peptidoglycan contains aspartic acid, glutamic acid, glycine, and alanine, with mannose, ribose, galactose, and arabinose as whole-cell sugars. Polar lipids consist of diphosphatidylglycerol (DPG), phosphatidylethanolamine (PE), glycolipid (GL1-3), phosphoglycolipid (PGL), phosphatidylinositol (PI), and unidentified lipid (L1). The predominant menaquinone was MK-9. Major fatty acids (>10%) were C17:1ω7c (37.0%) and C18:1ω9c (18.9%). The complete genome sequence of strain JXJ CY 35T was 6,138,096 bp in size with a DNA G + C content of 68.3%. Based on 16S rRNA gene sequences, it has 98.2% similarity to Mycolicibacterium arabiense JCM 18538T. The digital DNA-DNA hybridization (dDDH) and average nucleotide identity (ANI) values between strain JXJ CY 35T and the closest five type strains M. arabiense JCM 18538T, M. goodii ATCC 700504T, M. mageritense DSM 44476T, M. austroafricanum DSM 44191T, and Mycobacterium neglectum CECT 8778T were 52.1, 20.3, 20.3, 20.6, and 19.8%, and 92.7, 75.5, 75.6, 76.0, and 75.2%, respectively. On the basis of the above taxonomic data and differences in physiological characteristics from the closely related type strain, strain JXJ CY 35T was determined to represent a novel species of genus Mycolicibacterium, for which the name Mycolicibacterium lacusdiani sp. nov., is proposed. The type strain is JXJ CY 35T (=KCTC 49379T = CGMCC 1.17501T). Different inoculation dosages of the type strain JXJ CY 35T could exhibit different effects on the growth of Maf and its toxin synthesis and release. Strain JXJ CY 35T could promote the growth of Maf by providing it with available phosphorus, nitrogen, probably vitamins, and plant growth hormones.
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Affiliation(s)
- Yao Xiao
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, China
- College of Life Science, Fujian Normal University, Fuzhou, China
| | - Jian Chen
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, China
| | - Min Chen
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, China
| | - Shao-Ji Deng
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, China
| | - Zhi-Qian Xiong
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, China
| | - Bao-Yu Tian
- College of Life Science, Fujian Normal University, Fuzhou, China
| | - Bing-Huo Zhang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, China
- *Correspondence: Bing-Huo Zhang
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Xiao Y, Wang L, Wang X, Chen M, Chen J, Tian BY, Zhang BH. Nocardioides lacusdianchii sp. nov., an attached bacterium of Microcystis aeruginosa. Antonie van Leeuwenhoek 2021; 115:141-153. [PMID: 34846610 DOI: 10.1007/s10482-021-01690-9] [Citation(s) in RCA: 5] [Impact Index Per Article: 1.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Subscribe] [Scholar Register] [Received: 08/04/2021] [Accepted: 11/19/2021] [Indexed: 10/19/2022]
Abstract
Attached bacteria of Microcystis play important roles in the occurence, outbreak and decline of Microcystis water blooms. In this study, a novel actinobacterium, designated strain JXJ CY 38 T, was isolated from the culture mass of Microcystis aeruginosa FACHB-905 (MAF), collected from Lake Dianchi, south-west, China. The strain was found to be a Gram-stain positive, short rod, catalase positive and oxidase negative. The isolate was found to be able to grow at 5.0-38.0 °C (optimum, 28.0 °C), pH 4.0-11.0 (optimum, 7.0-8.0) and 0-3.0% (w/v, optimum, 0%) NaCl. Based on 16S rRNA gene sequences, strain JXJ CY 38 T shows high similarities to Nocardioides furvisabuli JCM 13813 T (99.0%) and Nocardioides alpinus JCM 18960 T (98.7%), and less than 98.2% similarities to other members of the genus. The major cellular fatty acids (> 10.0%) were identified as iso-C16:0 (23.6%), C18:1ω9c (18.2%) and C17:1ω8c (16.4%), while the predominant menaquinone was found to be MK-8 (H4). The diagnostic diamino acids in the cell wall peptidoglycan were identified as aspartic acid, glutamic acid, glycine and alanine, with mannose, ribose and arabinose as whole cell sugars. The polar lipids were found to be diphosphatidylglycerol, phosphatidylglycerol, a phospholipid, phosphatidylcholine and an unidentified lipid. The DNA G + C content was determined to be 71.3%. The digital DNA-DNA hybridization and average nucleotide identity values between strain JXJ CY 38 T and the type strains N. furvisabuli JCM 13813 T and N. alpinus JCM 18960 T were 49.4% and 37.7%, and 92.0% and 83.4%, respectively. On the basis of the above taxonomic data and differences in physiological characteristics from the closely related type strains, strain JXJ CY 38 T was determined to represent a novel species of genus Nocardioides, for which the name Nocardioides lacusdianchii sp. nov. is proposed. The type strain is JXJ CY 38 T (= KCTC 49381 T = CGMCC 4.7665 T). Strain JXJ CY 38 T apparently exhibits complex effects on the interactions between MAF and other attached bacteria, including the promotion or inhibition of the growth of MAF and bacteria, and the synthesis and release of microcystins by MAF.
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Affiliation(s)
- Yao Xiao
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, People's Republic of China.,College of Life Science, Fujian Normal University, Fuzhou, 350117, People's Republic of China
| | - Le Wang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, People's Republic of China
| | - Xin Wang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, People's Republic of China
| | - Min Chen
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, People's Republic of China
| | - Jian Chen
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, People's Republic of China
| | - Bao-Yu Tian
- College of Life Science, Fujian Normal University, Fuzhou, 350117, People's Republic of China
| | - Bing-Huo Zhang
- College of Pharmacy and Life Science, Jiujiang University, Jiujiang, 332000, People's Republic of China.
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Jiang ZM, Zhang BH, Sun HM, Zhang T, Yu LY, Zhang YQ. Properties of Modestobacter deserti sp. nov., a Kind of Novel Phosphate-Solubilizing Actinobacteria Inhabited in the Desert Biological Soil Crusts. Front Microbiol 2021; 12:742798. [PMID: 34803963 PMCID: PMC8602919 DOI: 10.3389/fmicb.2021.742798] [Citation(s) in RCA: 8] [Impact Index Per Article: 2.7] [Reference Citation Analysis] [Abstract] [Key Words] [Track Full Text] [Download PDF] [Figures] [Journal Information] [Subscribe] [Scholar Register] [Received: 08/02/2021] [Accepted: 10/05/2021] [Indexed: 11/29/2022] Open
Abstract
Three Gram-stain-positive, aerobic, motile actinobacterial strains designated as CPCC 205119T, CPCC 205215, and CPCC 205251 were isolated from different biological soil crust samples collected from Tengger Desert, China. The 16S rRNA gene sequence comparison of these three strains showed they had almost identical 16S rRNA genes, which were closely related to members of the family Geodermatophilaceae, with the highest similarities of 96.3–97.3% to the species of Modestobacter. In the phylogenetic tree based on 16S rRNA gene sequences, these isolates clustered into a subclade next to the branch containing the species of Modestobacter lapidis and Modestobacter multiseptatus, within the lineage of the genus Modestobacter. The comparative genomic characteristics (values of ANI, dDDH, AAI, and POCP) and the phenotypic properties (morphological, physiological, and chemotaxonomic characteristics) of these isolates readily supported to affiliate them to the genus Modestobacter as a single separate species. For which, we proposed that the isolates CPCC 205119T, CPCC 205215, and CPCC 205251 represent a novel species of the genus Modestobacter as Modestobacter deserti sp. nov. CPCC 205119T (=I12A-02624=NBRC 113528T=KCTC 49201T) is the type strain. The genome of strain CPCC 205119T consisted of one chromosome (4,843,235bp) containing 4,424 coding genes, 48 tRNA genes, five rRNA genes, three other ncRNA genes, and 101 pseudogenes, with G+C content of 74.7%. The whole-genome sequences analysis indicated that this species contained alkaline phosphatase genes (phoA/phoD), phosphate transport-related genes (phoU, phnC, phnD, phnE, phoB, phoH, phoP, phoR, pitH, ppk, pstA, pstB, pstC, and pstS), trehalose-phosphate synthase gene (otsA), trehalose 6-phosphate phosphatase gene (otsB) and other encoding genes for the properties that help the microorganisms to adapt to harsh environmental conditions prevalent in deserts. Strains of this species could solubilize tricalcium phosphate [Ca3(PO4)2] and phytin, assimilate pyrophosphate, thiophosphate, dithiophosphate, phosphoenol pyruvate, 2-deoxy-d-glucose-6-phosphate, and cysteamine-S-phosphate.
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Affiliation(s)
- Zhu-Ming Jiang
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China
| | - Bing-Huo Zhang
- College of Life Science, Jiujiang University, Jiujiang, China
| | - Hong-Min Sun
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China
| | - Tao Zhang
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China
| | - Li-Yan Yu
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China
| | - Yu-Qin Zhang
- Institute of Medicinal Biotechnology, Chinese Academy of Medical Sciences & Peking Union Medical College, Beijing, China
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Golińska P, Świecimska M, Montero-Calasanz MDC, Yaramis A, Igual JM, Bull AT, Goodfellow M. Modestobacter altitudinis sp. nov., a novel actinobacterium isolated from Atacama Desert soil. Int J Syst Evol Microbiol 2020; 70:3513-3527. [PMID: 32374252 DOI: 10.1099/ijsem.0.004212] [Citation(s) in RCA: 10] [Impact Index Per Article: 2.5] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 12/11/2022] Open
Abstract
Three presumptive Modestobacter strains isolated from a high altitude Atacama Desert soil were the subject of a polyphasic study. The isolates, strains 1G4T, 1G51 and 1G52, were found to have chemotaxonomic and morphological properties that were consistent with their assignment to the genus Modestobacter. They formed a well supported clade in Modestobacter 16S rRNA gene trees and were most closely related to the type strain of 'Modestobacter excelsi' (99.8-99.9% similarity). They were also closely related to the type strains of Modestobacter caceresii (99.6 % similarity), Modestobacter italicus (99.7-99.9% similarity), Modestobacter lacusdianchii (98.4-99.2% similarity), Modestobacter marinus (99.4-99.5% similarity) and Modestobacter roseus (99.3-99.5% similarity), but were distinguished from their closest relatives by a combination of phenotypic features. Average nucleotide identity and digital DNA:DNA hybridization similarities drawn from comparisons of draft genome sequences of isolate 1G4T and its closest phylogenetic neighbours mentioned above, were well below the threshold used to assign closely related strains to the same species. The close relationship between isolate 1G4T and the type strain of M. excelsi was showed in a phylogenomic tree containing representative strains of family Geodermatophilaceae. The draft genome sequence of isolate 1G4T (size 5.18 Kb) was shown to be rich in stress related genes providing further evidence that the abundance of Modestobacter propagules in Atacama Desert habitats reflects their adaptation to the harsh environmental conditions prevalent in this biome. In light of all of these data it is proposed that the isolates be assigned to a novel species in the genus Modestobacter. The name proposed for this taxon is Modestobacter altitudinis sp. nov., with isolate 1G4T (=DSM 107534T=PCM 3003T) as the type strain.
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Affiliation(s)
- Patrycja Golińska
- Department of Microbiology, Faculty of Biological and Veterinary Sciences, Nicolaus Copernicus University, Lwowska 1, 87 100 Torun, Poland
| | - Magdalena Świecimska
- Department of Microbiology, Faculty of Biological and Veterinary Sciences, Nicolaus Copernicus University, Lwowska 1, 87 100 Torun, Poland
| | | | - Adnan Yaramis
- School of Natural and Environmental Sciences, Ridley Building, Newcastle University, Newcastle upon Tyne NE1 7RU, UK
| | - Jose M Igual
- Instituto de Recursos Naturales y Agrobiología de Salamanca, Consejo Superior de Investigaciones Científicas (IRNASA-CSIC), c/Cordel de Merinas 40-52, 37008 Salamanca, Spain
| | - Alan T Bull
- School of Biosciences, University of Kent, Canterbury CT2 7NJ, Kent, UK
| | - Michael Goodfellow
- School of Natural and Environmental Sciences, Ridley Building, Newcastle University, Newcastle upon Tyne NE1 7RU, UK
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Montero-Calasanz MDC, Yaramis A, Nouioui I, Igual JM, Spröer C, Castro JF, Schumann P, Klenk HP, Urzì C. Modestobacter italicus sp. nov., isolated from Carrara marble quarry and emended descriptions of the genus Modestobacter and the species Modestobacter marinus, Modestobacter multiseptatus, Modestobacter roseus and Modestobacter versicolor. Int J Syst Evol Microbiol 2019; 69:1537-1545. [DOI: 10.1099/ijsem.0.003282] [Citation(s) in RCA: 18] [Impact Index Per Article: 3.6] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
| | - Adnan Yaramis
- 1School of Natural and Environmental Sciences, Newcastle University, Ridley Building 2, Newcastle upon Tyne, NE1 7RU, UK
| | - Imen Nouioui
- 1School of Natural and Environmental Sciences, Newcastle University, Ridley Building 2, Newcastle upon Tyne, NE1 7RU, UK
| | - José Mariano Igual
- 2Instituto de Recursos Naturales y Agrobiología de Salamanca, Consejo Superior de Investigaciones Científicas (IRNASA-CSIC), Cordel de Merinas 40-52, 37008 Salamanca, Spain
| | - Cathrin Spröer
- 3Leibniz Institute DSMZ – German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, 38124 Braunschweig, Germany
| | - Jean Franco Castro
- 4Department of Chemical Engineering and Biotechnology, Centre for Biotechnology and Bioengineering (CeBiB), University of Chile, Beauchef 851, Santiago, Chile
| | - Peter Schumann
- 3Leibniz Institute DSMZ – German Collection of Microorganisms and Cell Cultures, Inhoffenstraße 7B, 38124 Braunschweig, Germany
| | - Hans-Peter Klenk
- 1School of Natural and Environmental Sciences, Newcastle University, Ridley Building 2, Newcastle upon Tyne, NE1 7RU, UK
| | - Clara Urzì
- 5Department of Chemical, Biological, Pharmaceutical and Environmental Sciences, University of Messina, Italy
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List of new names and new combinations previously effectively, but not validly, published. Int J Syst Evol Microbiol 2018; 68:3379-3393. [DOI: 10.1099/ijsem.0.003071] [Citation(s) in RCA: 310] [Impact Index Per Article: 51.7] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 01/06/2023] Open
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Li JL, Salam N, Wang PD, Chen LX, Jiao JY, Li X, Xian WD, Han MX, Fang BZ, Mou XZ, Li WJ. Discordance Between Resident and Active Bacterioplankton in Free-Living and Particle-Associated Communities in Estuary Ecosystem. MICROBIAL ECOLOGY 2018; 76:637-647. [PMID: 29549384 DOI: 10.1007/s00248-018-1174-4] [Citation(s) in RCA: 17] [Impact Index Per Article: 2.8] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Subscribe] [Scholar Register] [Received: 12/15/2017] [Accepted: 03/02/2018] [Indexed: 06/08/2023]
Abstract
Bacterioplankton are the major driving force for biogeochemical cycles in estuarine ecosystems, but the communities that mediate these processes are largely unexplored. We sampled in the Pearl River Estuary (PRE) to examine potential differences in the taxonomic composition of resident (DNA-based) and active (RNA-based) bacterioplankton communities in free-living and particle-associated fractions. MiSeq sequencing data showed that the overall bacterial diversity in particle-associated fractions was higher than in free-living communities. Further in-depth analyses of the sequences revealed a positive correlation between resident and active bacterioplankton communities for the particle-associated fraction but not in the free-living fraction. However, a large overlapping of OTUs between free-living and particle-associated communities in PRE suggested that the two fractions may be actively exchanged. We also observed that the positive correlation between resident and active communities is more prominent among the abundant OTUs (relative abundance > 0.2%). Further, the results from the present study indicated that low-abundance bacterioplankton make an important contribution towards the metabolic activity in PRE.
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Affiliation(s)
- Jia-Ling Li
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, Guangdong, China
| | - Nimaichand Salam
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, Guangdong, China
| | - Pan-Deng Wang
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, Guangdong, China
| | - Lin-Xing Chen
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, Guangdong, China
| | - Jian-Yu Jiao
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, Guangdong, China
| | - Xin Li
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, Guangdong, China
| | - Wen-Dong Xian
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, Guangdong, China
| | - Ming-Xian Han
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, Guangdong, China
| | - Bao-Zhu Fang
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, Guangdong, China
| | - Xiao-Zhen Mou
- Department of Biological Sciences, Kent State University, Kent, OH, USA.
| | - Wen-Jun Li
- State Key Laboratory of Biocontrol and Guangdong Provincial Key Laboratory of Plant Resources, School of Life Sciences, Sun Yat-Sen University, Guangzhou, Guangdong, China.
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Li Y, Ai MJ, Sun Y, Zhang YQ, Zhang JQ. Spirosoma lacussanchae sp. nov., a phosphate-solubilizing bacterium isolated from a freshwater reservoir. Int J Syst Evol Microbiol 2017; 67:3144-3149. [DOI: 10.1099/ijsem.0.001778] [Citation(s) in RCA: 30] [Impact Index Per Article: 4.3] [Reference Citation Analysis] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Yong Li
- Faculty of Geosciences and Environmental Engineering, Southwest Jiaotong Universit, Chengdu 610031, PR China
| | - Meng-Jie Ai
- Institute of Mediicinal Biotechnology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100050, PR China
| | - Ye Sun
- Institute of Mediicinal Biotechnology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100050, PR China
| | - Yu-Qin Zhang
- Institute of Mediicinal Biotechnology, Chinese Academy of Medical Sciences and Peking Union Medical College, Beijing 100050, PR China
| | - Jian-Qiang Zhang
- Faculty of Geosciences and Environmental Engineering, Southwest Jiaotong Universit, Chengdu 610031, PR China
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