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Ran Q, Du X, Han L, Wang J, Li YZ. Three novel species of the genus Flavobacterium, Flavobacterium odoriferum sp. nov., Flavobacterium fragile sp. nov. and Flavobacterium luminosum sp. nov., isolated from activated sludge. Int J Syst Evol Microbiol 2024; 74. [PMID: 38305772 DOI: 10.1099/ijsem.0.006258] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Key Words] [MESH Headings] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 02/03/2024] Open
Abstract
Three Gram-stain-negative, rod-shaped, non-spore-forming bacteria were isolated from activated sludge samples. The results of phylogenetic analysis based on the 16S rRNA gene sequences indicated that the three strains, designated HXWNR29T, HXWNR69T and HXWNR70T, had the highest sequence similarity to the type strains Flavobacterium cheniae NJ-26T, Flavobacterium channae KSM-R2A30T and Flavobacterium amniphilum KYPY10T with similarities of 97.66 %, 98.66 and 98.14 %, respectively. The draft genomes of these three strains were 2.93 Mbp (HXWNR29T), 2.69 Mbp (HXWNR69T) and 2.65 Mbp (HXWNR70T) long with DNA G+C contents of 31.84 %, 32.83 % and 34.66 %, respectively. These genomes contained many genes responsible for carbohydrate degradation and antibiotic resistance. The major fatty acids (>5 %) included iso-C15 : 0, iso-C15 : 0 3-OH and iso-C17 : 0 3-OH. The major menaquinone was MK-6 for all the three strains. The average nucleotide identity (ANI; 72.7-88.5 %) and digital DNA-DNA hybridization (dDDH; 19.6-35.3 %) results further indicated that these three strains represented three novel species within the genus Flavobacterium, for which the names Flavobacterium odoriferum sp. nov. (type strain HXWNR29T = KCTC 92446T = CGMCC 1.61821T), Flavobacterium fragile sp. nov. (type strain HXWNR69T = KCTC 92468T = CGMCC 1.61442T) and Flavobacterium luminosum sp. nov. (type strain HXWNR70T = KCTC 92447T = CGMCC 1.61443T) are proposed.
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Affiliation(s)
- Qi Ran
- State Key Laboratory of Microbial Technology, Institute of Microbiology Technology, Shandong University, Qingdao 266237, PR China
| | - Xinran Du
- State Key Laboratory of Microbial Technology, Institute of Microbiology Technology, Shandong University, Qingdao 266237, PR China
| | - Lin Han
- Institute of Marine Science and Technology, Shandong University, Qingdao 266237, PR China
| | - Jingjing Wang
- State Key Laboratory of Microbial Technology, Institute of Microbiology Technology, Shandong University, Qingdao 266237, PR China
| | - Yue-Zhong Li
- State Key Laboratory of Microbial Technology, Institute of Microbiology Technology, Shandong University, Qingdao 266237, PR China
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Lee RM, Griffin N, Jones E, Abbott BW, Frei RJ, Bratsman S, Proteau M, Errigo IM, Shogren A, Bowden WB, Zarnetske JP, Aanderud ZT. Bacterioplankton dispersal and biogeochemical function across Alaskan Arctic catchments. Environ Microbiol 2022; 24:5690-5706. [PMID: 36273269 DOI: 10.1111/1462-2920.16259] [Citation(s) in RCA: 0] [Impact Index Per Article: 0] [Reference Citation Analysis] [Abstract] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Received: 05/14/2022] [Accepted: 10/21/2022] [Indexed: 01/12/2023]
Abstract
In Arctic catchments, bacterioplankton are dispersed through soils and streams, both of which freeze and thaw/flow in phase, seasonally. To characterize this dispersal and its potential impact on biogeochemistry, we collected bacterioplankton and measured stream physicochemistry during snowmelt and after vegetation senescence across multiple stream orders in alpine, tundra, and tundra-dominated-by-lakes catchments. In all catchments, differences in community composition were associated with seasonal thaw, then attachment status (i.e. free floating or sediment associated), and then stream order. Bacterioplankton taxonomic diversity and richness were elevated in sediment-associated fractions and in higher-order reaches during snowmelt. Families Chthonomonadaceae, Pyrinomonadaceae, and Xiphinematobacteraceae were abundantly different across seasons, while Flavobacteriaceae and Microscillaceae were abundantly different between free-floating and sediment-associated fractions. Physicochemical data suggested there was high iron (Fe+ ) production (alpine catchment); Fe+ production and chloride (Cl- ) removal (tundra catchment); and phosphorus (SRP) removal and ammonium (NH4 + ) production (lake catchment). In tundra landscapes, these 'hot spots' of Fe+ production and Cl- removal accompanied shifts in species richness, while SRP promoted the antecedent community. Our findings suggest that freshet increases bacterial dispersal from headwater catchments to receiving catchments, where bacterioplankton-mineral relations stabilized communities in free-flowing reaches, but bacterioplankton-nutrient relations stabilized those punctuated by lakes.
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Affiliation(s)
- Raymond M Lee
- Department of Plant and Wildlife Sciences, Brigham Young University, Provo, Utah, USA
| | - Natasha Griffin
- College of Earth, Ocean, and Atmospheric Sciences, Oregon State University, Corvalis, Oregon, USA
| | - Erin Jones
- Department of Plant and Wildlife Sciences, Brigham Young University, Provo, Utah, USA
| | - Benjamin W Abbott
- Department of Plant and Wildlife Sciences, Brigham Young University, Provo, Utah, USA
| | - Rebecca J Frei
- Department of Renewable Resources, University of Alberta, Edmonton, Alberta, Canada
| | - Samuel Bratsman
- Department of Plant and Wildlife Sciences, Brigham Young University, Provo, Utah, USA
| | - Mary Proteau
- Department of Plant and Wildlife Sciences, Brigham Young University, Provo, Utah, USA
| | - Isabella M Errigo
- Department of Plant and Wildlife Sciences, Brigham Young University, Provo, Utah, USA
| | - Arial Shogren
- Department of Biological Sciences, The University of Alabama, Tuscaloosa, Alabama, USA
| | - William B Bowden
- The Rubenstein School of Environment and Natural Resources, University of Vermont, Burlington, Vermont, USA
| | - Jay P Zarnetske
- Department of Earth and Environmental Sciences, Michigan State University, East Lansing, Michigan, USA
| | - Zachary T Aanderud
- Department of Plant and Wildlife Sciences, Brigham Young University, Provo, Utah, USA
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Oren A, Garrity GM. List of new names and new combinations previously effectively, but not validly, published. Int J Syst Evol Microbiol 2020; 70:2960-2966. [PMID: 32471528 DOI: 10.1099/ijsem.0.004156] [Citation(s) in RCA: 25] [Impact Index Per Article: 6.3] [Reference Citation Analysis] [Key Words] [Track Full Text] [Journal Information] [Subscribe] [Scholar Register] [Indexed: 11/18/2022] Open
Affiliation(s)
- Aharon Oren
- The Institute of Life Sciences, The Hebrew University of Jerusalem, The Edmond J. Safra Campus, 9190401 Jerusalem, Israel
| | - George M Garrity
- Department of Microbiology & Molecular Genetics, Biomedical Physical Sciences, Michigan State University, East Lansing, MI 48824-4320, USA
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