scholarly journals Draft Genome Assemblies of Xylose-Utilizing Candida tropicalis and Candida boidinii with Potential Application in Biochemical and Biofuel Production

2018 ◽  
Vol 6 (7) ◽  
Author(s):  
Abhishek Somani ◽  
Daniel Smith ◽  
Matthew Hegarty ◽  
Narcis Fernandez-Fuentes ◽  
Sreenivas R. Ravella ◽  
...  
Keyword(s):  
Candida Tropicalis ◽  
Potential Application ◽  
Draft Genome ◽  
Biofuel Production ◽  
Candida Boidinii ◽  
Industrial Biotechnology ◽  
Genome Sequences ◽  
Genome Assemblies

ABSTRACT Non- albicans Candida species are growing in prominence in industrial biotechnology due to their ability to utilize hemicellulose. Here, we present the draft genome sequences of an inhibitor-tolerant Candida tropicalis strain (Y6604) and Candida boidinii NCAIM Y01308 T .

scholarly journals High-Quality Draft Genome Sequences of Four Lignocellulose-Degrading Bacteria Isolated from Puerto Rican Forest Soil: Gordonia sp., Paenibacillus sp., Variovorax sp., and Vogesella sp

2017 ◽  
Vol 5 (18) ◽  
Author(s):  
Hannah L. Woo ◽  
Kristen M. DeAngelis ◽  
Hazuki Teshima ◽  
Karen Davenport ◽  
Hajnalka Daligault ◽  
...  
Keyword(s):  
Puerto Rican ◽  
Forest Soil ◽  
Genetic Basis ◽  
Draft Genome ◽  
Tropical Soil ◽  
Biofuel Production ◽  
Genome Sequences ◽  
High Quality ◽  
Degrading Bacteria ◽  
Paenibacillus Sp

ABSTRACT Here, we report the high-quality draft genome sequences of four phylogenetically diverse lignocellulose-degrading bacteria isolated from tropical soil (Gordonia sp., Paenibacillus sp., Variovorax sp., and Vogesella sp.) to elucidate the genetic basis of their ability to degrade lignocellulose. These isolates may provide novel enzymes for biofuel production.

scholarly journals Eight Whole-Genome Assemblies of Yersinia pestis subsp. microtus bv. caucasica Isolated from the Common Vole (Microtus arvalis) Plague Focus in Dagestan, Russia

2017 ◽  
Vol 5 (34) ◽  
Author(s):  
Angelina A. Kislichkina ◽  
Aleksandr G. Bogun ◽  
Lidiya A. Kadnikova ◽  
Nadezhda V. Maiskaya ◽  
Viktor I. Solomentsev ◽  
...  
Keyword(s):  
Yersinia Pestis ◽  
Draft Genome ◽  
Common Vole ◽  
Whole Genome ◽  
Microtus Arvalis ◽  
Genome Sequences ◽  
Content Type ◽  
The Common ◽  
Common Voles ◽  
Genome Assemblies

ABSTRACT We here report the draft genome sequences of 8 Yersinia pestis subsp. microtus bv. caucasica strains isolated from the East Caucasian (previous name, Dagestan) mountain focus (no. 39), representing the most ancient branch of the 0.PE2 phylogroup circulating in populations of common voles (Microtus arvalis).

scholarly journals Whole-Genome Assemblies for Two Yersinia pestis Strains Isolated in Mongolia

2020 ◽  
Vol 9 (41) ◽  
Author(s):  
Muzi Jin ◽  
B. Byambajav ◽  
Hongyuan Zheng ◽  
Yufei Chen ◽  
B. Natsagdorj ◽  
...  
Keyword(s):  
Yersinia Pestis ◽  
Draft Genome ◽  
Whole Genome ◽  
Genome Sequences ◽  
Content Type ◽  
Genome Assemblies

ABSTRACT Here, we report the draft genome sequences of two Yersinia pestis bv. Antiqua strains, belonging to the 3.ANT phylogroup, that were isolated in Mongolia and were circulating in marmot populations.

scholarly journals Draft Genome Sequences of Lactobacillus delbrueckii subsp. bulgaricus Strains CBC-LB69 and CBC-LB8, Isolated from Homemade Dairy Foods in Bulgaria

2020 ◽  
Vol 9 (45) ◽  
Author(s):  
Hanan R. Shehata ◽  
Richmond A. Chandler ◽  
Steven G. Newmaster
Keyword(s):  
Draft Genome ◽  
Lactobacillus Delbrueckii ◽  
Genome Sequences ◽  
Content Type ◽  
Dairy Foods ◽  
Genome Assemblies ◽  
Lactobacillus Delbrueckii Subsp ◽  
Gc Contents

ABSTRACT Here, we report the draft genome sequences of Lactobacillus delbrueckii subsp. bulgaricus strains CBC-LB69 and CBC-LB8. The strains were isolated from naturally processed, homemade dairy foods in Bulgaria. The two genome assemblies each resulted in 39 contigs with total lengths of 1,752,493 and 1,759,908 bp and GC contents of 49.80% and 49.90%, respectively.

scholarly journals Draft Genome Sequences of Micrococcus luteus MFP06 and MFP07, Isolated from the Skin of Healthy Volunteers

2020 ◽  
Vol 9 (25) ◽  
Author(s):  
Djouhar Souak ◽  
Amine M. Boukerb ◽  
Magalie Barreau ◽  
Cecile Duclairoir-Poc ◽  
Marc G. J. Feuilloley
Keyword(s):  
Dna Repair ◽  
Osmotic Stress ◽  
Healthy Volunteers ◽  
Micrococcus Luteus ◽  
Draft Genome ◽  
Genome Sequences ◽  
Coding Sequences ◽  
Content Type ◽  
Osmotic Stress Tolerance ◽  
Genome Assemblies

ABSTRACT We report the draft genome sequences of two Micrococcus luteus strains, MFP06 and MFP07, isolated from human skin. The genome assemblies consist of 2,480 and 2,417 kbp with 2,337 and 2,240 coding sequences, respectively. The genomes contain genes potentially involved in osmotic stress tolerance, DNA repair, monoacylglycerol hydrolysis, and beta-lactone synthesis.

scholarly journals Whole-Genome Assemblies for Three Yersinia pestis Strains Isolated in Erenhot, China

2020 ◽  
Vol 9 (45) ◽  
Author(s):  
Jing Wang ◽  
Xifeng Yang ◽  
Hongyuan Zheng ◽  
Li Tian ◽  
Qi Shi ◽  
...  
Keyword(s):  
Genetic Diversity ◽  
Yersinia Pestis ◽  
Draft Genome ◽  
Meriones Unguiculatus ◽  
Whole Genome ◽  
Genome Sequences ◽  
Content Type ◽  
Genome Assemblies

ABSTRACT To explore the genetic diversity of Yersinia pestis strains in Erenhot, China, and their relationship with Mongolian strains, we collected and sequenced three Y. pestis strains from Erenhot, China, in 2018. Here, we report the draft genome sequences of three Y. pestis bv. Medievalis strains belonging to the 2.MED phylogroup that were circulating in Meriones unguiculatus populations.

scholarly journals Assembly of complete diploid phased chromosomes from draft genome sequences

2021 ◽  
Author(s):  
Andrea Minio ◽  
Noe Cochetel ◽  
Amanda M Vondras ◽  
Melanie Massonnet ◽  
Dario Cantu
Keyword(s):  
De Novo ◽  
Draft Genome ◽  
Biological Information ◽  
Genomic Research ◽  
Genome Sequences ◽  
Animal Kingdom ◽  
De Novo Genome Assembly ◽  
Closely Related Species ◽  
Assembly Strategy ◽  
Genome Assemblies

De novo genome assembly is essential for genomic research. High-quality genomes assembled into phased pseudomolecules are challenging to produce and often contain assembly errors caused by repeats, heterozygosity, or the chosen assembly strategy. Although algorithms exist that produce partially phased assemblies, haploid draft assemblies that may lack biological information remain favored because they are easier to generate and use. We developed HaploSync, a suite of tools that produces fully phased, chromosome-scale diploid genome assemblies and performs extensive quality control to limit assembly artifacts. HaploSync uses a genetic map and/or the genome of a closely related species to guide the scaffolding of a diploid assembly into phased pseudomolecules for each chromosome. It compares alternative haplotypes to identify and correct misassemblies independent of a reference, fills assembly gaps with unplaced sequences, and resolves collapsed homozygous regions. In a series of plant, fungal, and animal kingdom case studies, we demonstrate that HaploSync increases the assembly contiguity of phased chromosomes, improves completeness by filling gaps, corrects scaffolding, and correctly phases highly heterozygous, complex regions.

scholarly journals Draft Genome Assemblies of Two Campylobacter novaezeelandiae and Four Unclassified Thermophilic Campylobacter Isolates from Canadian Agricultural Surface Water

2021 ◽  
Vol 10 (17) ◽  
Author(s):  
Mirena Ivanova ◽  
Bonnie Oh ◽  
Izhar U. H. Khan ◽  
Kendra Nightingale ◽  
Marie Bugarel ◽  
...  
Keyword(s):  
Surface Water ◽  
Draft Genome ◽  
Phylogenomic Analysis ◽  
Genome Sequences ◽  
Content Type ◽  
Thermophilic Campylobacter ◽  
Genome Assemblies

ABSTRACT This report presents the draft genome sequences of two Campylobacter novaezeelandiae and four unclassified Campylobacter isolates from Canadian agricultural surface water. Phylogenomic analysis revealed that the six isolates formed unique clades, closely related to the disease-causing species C. jejuni, C. coli, and C. hepaticus.

scholarly journals Draft Genome Sequences of Dermacoccus nishinomiyaensis Strains UCD-KPL2534 and UCD-KPL2528 Isolated from an Indoor Track Facility

2017 ◽  
Vol 5 (8) ◽  
Author(s):  
Brian A. Klein ◽  
Katherine P. Lemon ◽  
Prasad Gajare ◽  
Guillaume Jospin ◽  
Jonathan A. Eisen ◽  
...  
Keyword(s):  
Draft Genome ◽  
Genome Sequences ◽  
Content Type ◽  
Exit Door ◽  
Genome Assemblies ◽  
Settle Dust

ABSTRACT We present here the draft genome sequences of Dermacoccus nishinomiyaensis strains UCD-KPL2534 and UCD-KPL2528, which were isolated at an indoor track facility in Medford, MA, USA (42.409716, -71.115169) from an exit door handle and settle dust, respectively. The genome assemblies contain 3,088,111 bp in 58 contigs and 3,162,381 bp in 100 contigs, respectively.

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