scholarly journals Draft Genome Sequences of Type Strains of Adlercreutzia muris and Ellagibacter urolithinifaciens, Belonging to the Family Eggerthellaceae

2019 ◽  
Vol 8 (47) ◽  
Author(s):  
Nicolas Danylec ◽  
Dominic A. Stoll ◽  
Melanie Huch
Keyword(s):  
Draft Genome ◽  
Genome Sequences ◽  
The Family ◽  
Type Strains

Here, we report the annotated draft genome sequences of two type strains belonging to the family Eggerthellaceae within the class Coriobacteriia (phylum Actinobacteria), Adlercreutzia muris WCA-131-CoC-2 (= DSM 29508 = KCTC 15543) and Ellagibacter urolithinifaciens CEBAS 4A (= CCUG 70284 = DSM 104140).

scholarly journals Draft Genome Sequences of Chryseobacterium lactis NCTC11390T Isolated from Milk, Chryseobacterium oncorhynchi 701B-08T from Rainbow Trout, and Chryseobacterium viscerum 687B-08T from Diseased Fish

2018 ◽  
Vol 6 (26) ◽  
Author(s):  
Jin-Ju Jeong ◽  
Ye Ji Lee ◽  
Duleepa Pathiraja ◽  
Byeonghyeok Park ◽  
In-Geol Choi ◽  
...  
Keyword(s):  
Growth Promotion ◽  
Bacterial Species ◽  
Draft Genome ◽  
Genome Sequences ◽  
Free Living ◽  
Gram Negative ◽  
Content Type ◽  
The Family ◽  
Diseased Fish ◽  
Type Strains

The genus Chryseobacterium, belonging to the family Flavobacteriaceae, contains Gram-negative, yellow-pigmented, rod-shaped, and non-spore-forming bacterial species, which may be free living or parasitic. Here, we report draft genome sequences of type strains of three species of Chryseobacterium containing genes related to biological control and plant growth promotion.

scholarly journals Draft Genome Sequences of Chryseobacterium artocarpi UTM-3 T and Chryseobacterium contaminans C26 T , Isolated from Rhizospheres, and Chryseobacterium arthrosphaerae CC-VM-7 T , Isolated from the Feces of a Pill Millipede: TABLE 1 

2016 ◽  
Vol 4 (5) ◽  
Author(s):  
Jin-Ju Jeong ◽  
Byeonghyeok Park ◽  
Ji Yeon Oh ◽  
Mohamed Mannaa ◽  
Yoo Jun Kim ◽  
...  
Keyword(s):  
Plant Growth ◽  
Plant Growth Promotion ◽  
Growth Promotion ◽  
Draft Genome ◽  
Stress Adaptation ◽  
Genome Sequences ◽  
The Family ◽  
Type Strains

Species of the genus Chryseobacterium belonging to the family Flavobacteriaceae are nonmotile, yellow-pigmented, and rod-shaped bacteria, some of which were frequently isolated from soil or plant-related materials. Here, we present draft genome sequences of three type strains of Chryseobacterium , which contain genes related to plant growth promotion, colonization, or stress adaptation.

scholarly journals Draft Genome Sequences of Type Strains of Gordonibacter faecihominis, Paraeggerthella hongkongensis, Parvibacter caecicola, Slackia equolifaciens, Slackia faecicanis, and Slackia isoflavoniconvertens

2019 ◽  
Vol 8 (2) ◽  
Author(s):  
Nicolas Danylec ◽  
Dominic A. Stoll ◽  
Andreas Dötsch ◽  
Melanie Huch
Keyword(s):  
Draft Genome ◽  
Genome Sequences ◽  
Content Type ◽  
The Family ◽  
Type Strains

Here, we report the annotated draft genome sequences of six type strains of the family Eggerthellaceae, Gordonibacter faecihominis JCM 16058, Paraeggerthella hongkongensis DSM 16106, Parvibacter caecicola DSM 22242, Slackia equolifaciens DSM 24851, Slackia faecicanis DSM 17537, and Slackia isoflavoniconvertens DSM 22006.

scholarly journals Draft Genome Sequences of Three Flavobacterium psychrophilum Strains Isolated from Diseased Ayu (Plecoglossus altivelis altivelis) Caught at Three Sites in the Kagami River in Kochi, Japan

2019 ◽  
Vol 8 (34) ◽  
Author(s):  
Hazuki Yamashita ◽  
Takayuki Wada ◽  
Yusuke Kato ◽  
Takuji Ikeda ◽  
Masayuki Imajoh
Keyword(s):  
Draft Genome ◽  
Psychrophilic Bacterium ◽  
Genome Sequences ◽  
Plecoglossus Altivelis ◽  
Gram Negative ◽  
Content Type ◽  
Flavobacterium Psychrophilum ◽  
Skin Ulcers ◽  
The Family

Flavobacterium psychrophilum is a Gram-negative, psychrophilic bacterium within the family Flavobacteriaceae. Here, we report the draft genome sequences of three F. psychrophilum strains isolated from skin ulcers of diseased ayu caught by tomozuri angling at three sites in the Kagami River in Japan.

scholarly journals Draft Genome Sequences of Type Strains Bacillus drentensis DSM 15600 T and Bacillus novalis DSM 15603 T

2016 ◽  
Vol 4 (6) ◽  
Author(s):  
Bo Liu ◽  
Guo-Hong Liu ◽  
Yu-jing Zhu ◽  
Jie-Ping Wang ◽  
Jian-Mei Che ◽  
...  
Keyword(s):  
Draft Genome ◽  
Functional Gene ◽  
Genome Sequences ◽  
Gene Mining ◽  
Type Strains

Here, we report the draft genome sequences of Bacillus drentensis DSM 15600 T and Bacillus novalis DSM 15603 T with 5,305,306 bp and 5,667,584 bp, respectively, which will provide useful information for the functional gene mining and application of these two species. The average DNA G+C contents were 38.91% and 40.01%, respectively.

scholarly journals Draft Genome Sequences of 64 Type Strains of 50 Species and 25 Subspecies of the Genus Staphylococcus Rosenbach 1884

2019 ◽  
Vol 8 (17) ◽  
Author(s):  
Kevin Cole ◽  
Dona Foster ◽  
Julie E. Russell ◽  
Tanya Golubchik ◽  
Martin Llewelyn ◽  
...  
Keyword(s):  
Whole Genome Sequencing ◽  
Genome Sequencing ◽  
Draft Genome ◽  
Whole Genome ◽  
Genome Sequences ◽  
Accurate Identification ◽  
Access To Data ◽  
Type Strains

Members of the genus Staphylococcus have been isolated from humans, animals, and the environment. Accurate identification with whole-genome sequencing requires access to data derived from type strains.

scholarly journals Draft Genome Sequences of Itaconate-Producing Ustilaginaceae

2016 ◽  
Vol 4 (6) ◽  
Author(s):  
Elena Geiser ◽  
Florian Ludwig ◽  
Thiemo Zambanini ◽  
Nick Wierckx ◽  
Lars M. Blank
Keyword(s):  
Metabolic Engineering ◽  
Genome Sequencing ◽  
De Novo ◽  
Draft Genome ◽  
Essential Genes ◽  
Smut Fungi ◽  
Genome Sequences ◽  
The Family

Some smut fungi of the family Ustilaginaceae produce itaconate from glucose. De novo genome sequencing of nine itaconate-producing Ustilaginaceae revealed genome sizes between 19 and 25 Mbp. Comparison to the itaconate cluster of U. maydis MB215 revealed all essential genes for itaconate production contributing to metabolic engineering for improving itaconate production.

16S rRNA and Multilocus Phylogenetic Analysis of the Iron Oxidizing Acidophiles of the Acidiferrobacteraceae Family

2017 ◽  
Vol 262 ◽  
pp. 339-343 ◽  
Author(s):  
Francisco Issotta ◽  
Paulo C. Covarrubias ◽  
Ana Moya-Beltrán ◽  
Sören Bellenberg ◽  
Christian Thyssen ◽  
...  
Keyword(s):  
Draft Genome ◽  
Phylogenetic Reconstruction ◽  
Taxonomic Status ◽  
Genomic Diversity ◽  
Evolutionary Information ◽  
Comparative Genomic ◽  
The Family ◽  
Sulfur Oxidizer ◽  
Acid Waters ◽  
Type Strains

The family Acidiferrobacteraceae (order Acidiferrobacterales) currently contains three genera of chemolithoautotrophs: Sulfuricaulis (2016), Sulfurifustis (2015) and Acidiferrobacter (2011). While the two former are neutrophilic sulfur oxidizers isolated from lake sediments in Japan, the latter is an extremely acidophilic, moderately osmophilic, thermotolerant iron/sulfur oxidizer known to occur in macroscopic streamers in Rio Tinto, Spain and in acid waters worldwide. The type strains of both Sulfuricaulis limnicola (HA5T) and Sulfurifustis variabilis (skN76T) have been sequenced, and the draft genome of the ZJ isolate of Acidiferrobacter thiooxydans (MDCF01) has recently been deposited in public databases. Despite this fact, little evidence on the genomic diversity and evolution of this group has been presented so far. Using comparative genomic analyses and phylogenetic reconstruction strategies, we explored the evolutionary information contained in the available genome sequences to shed light on the taxonomic status of a novel isolate of the genus Acidiferrobacter (SP-III/3; DSM 27195).

Taxonomic revision of Harveyi clade bacteria (family Vibrionaceae) based on analysis of whole genome sequences

2013 ◽  
Vol 63 (Pt_7) ◽  
pp. 2742-2751 ◽  
Author(s):  
Henryk Urbanczyk ◽  
Yoshitoshi Ogura ◽  
Tetsuya Hayashi
Keyword(s):  
Genome Sequence ◽  
Sequence Data ◽  
Draft Genome ◽  
Taxonomic Revision ◽  
Whole Genome Sequence ◽  
Whole Genome ◽  
Genome Sequences ◽  
Genome Sequence Data ◽  
The Family

Use of inadequate methods for classification of bacteria in the so-called Harveyi clade (family Vibrionaceae, Gammaproteobacteria) has led to incorrect assignment of strains and proliferation of synonymous species. In order to resolve taxonomic ambiguities within the Harveyi clade and to test usefulness of whole genome sequence data for classification of Vibrionaceae, draft genome sequences of 12 strains were determined and analysed. The sequencing included type strains of seven species: Vibrio sagamiensis NBRC 104589T, Vibrio azureus NBRC 104587T, Vibrio harveyi NBRC 15634T, Vibrio rotiferianus LMG 21460T, Vibrio campbellii NBRC 15631T, Vibrio jasicida LMG 25398T, and Vibrio owensii LMG 25443T. Draft genome sequences of strain LMG 25430, previously designated the type strain of [Vibrio communis], and two strains (MWB 21 and 090810c) from the ‘beijerinckii’ lineage were also determined. Whole genomes of two additional strains (ATCC 25919 and 200612B) that previously could not be assigned to any Harveyi clade species were also sequenced. Analysis of the genome sequence data revealed a clear case of synonymy between V. owensii and [V. communis], confirming an earlier proposal to synonymize both species. Both strains from the ‘beijerinckii’ lineage were classified as V. jasicida, while the strains ATCC 25919 and 200612B were classified as V. owensii and V. campbellii, respectively. We also found that two strains, AND4 and Ex25, are closely related to Harveyi clade bacteria, but could not be assigned to any species of the family Vibrionaceae. The use of whole genome sequence data for the taxonomic classification of the Harveyi clade bacteria and other members of the family Vibrionaceae is also discussed.

scholarly journals Leekyejoonella antrihumi gen. nov., sp. nov., a new member of the family Dermacoccaceae isolated from a cave soil

2020 ◽  
Vol 70 (5) ◽  
pp. 3340-3347 ◽  
Author(s):  
Soon Dong Lee ◽  
In Seop Kim ◽  
Peter Schumann ◽  
Gwanpil Song
Keyword(s):  
Type Species ◽  
Phylogenetic Analyses ◽  
Draft Genome ◽  
Rrna Gene ◽  
The Novel ◽  
Unidentified Phospholipid ◽  
Content Type ◽  
Link Type ◽  
The Family ◽  
Type Strains

A novel Gram-stain-positive, actinobacterial strain, designated C5-26T, was isolated from soil from a natural cave in Jeju, Republic of Korea, and its taxonomic position was investigated using a polyphasic approach. The organism was aerobic, and cells were non-spore-forming, non-motile cocci that occurred singly, in pairs, in triplets, in tetrads, in short chains or in irregular clusters. Colonies of the cells were circular, convex, entire and white. The peptidoglycan type was A4α with an l-Ser–d-Asp interpeptide bridge. The whole-cell sugars comprised glucose, rhamnose, mannose, arabinose, galactose and ribose. The major menaquinone was MK-8(H4). The polar lipids contained diphosphatidylglycerol, phosphatidylglycerol, phosphatidylinositol and an unidentified phospholipid. The major fatty acids were iso-C16 : 0 and iso-C16 : 1 h. The size of the draft genome was 5.32 Mbp with depth of coverage of 161×. The G+C content of the genomic DNA was 67.1 mol%. Phylogenetic analyses based on 16S rRNA gene sequences showed that the novel isolate belonged to the family Dermacoccaceae and formed a distinct subcluster at the base of the radiation of the genus Luteipulveratus . Highest sequence similarities of the novel isolate were found to the type strains of Luteipulveratus halotolerans (96.2 %), Branchiibius hedensis (95.4 %), Luteipulveratus mongoliensis (95.4 %) and Branchiibius cervicis (95.3 %). The whole genome-based phylogeny supported the novelty of the isolate at the genus level in the family Dermacoccaceae . On the basis of data from this polyphasic study, strain C5-26T (=KCTC 39632T=DSM 108676T) represents a novel species of a new genus in the family Dermacoccaceae , for which the name Leekyejoonella antrihumi gen. nov., sp. nov. is proposed.

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