Draft Genome Sequence Research Articles

Draft genome sequence of heat-tolerant Escherichia coli strain AKS1GF CIFRI isolated from a coal power plant discharge in the river ganga.

Escherichia coli strain, AKS1GF ICAR-CIFRI, was isolated from a thermally contaminated water with average water temperatures of 45°C ± 2.5°C in river Ganga, India. The draft genome sequence is of 4.7 MB consisting of 44 contigs. The strain contains 4,314 protein coding genes and 96 RNA genes.

Draft genome of hydrocarbon-degrader Burkholderia cepacia BCTT, isolated from soil chronically polluted with crude oil in Trinidad.

Burkholderia cepacia BCTT, isolated from chronically polluted soil in Trinidad, shows a capacity to survive in crude oil as a sole carbon source. Here, we report its high-quality draft genome sequence and highlight those pathways and genes involved in xenobiotic degradation. These data give a clearer insight into this organism's biotechnological potential.

Draft genome sequence of a cyanobacterium Gloeocapsa sp. BRSZ, isolated from Bo Khlueng hot spring in Ratchaburi, Thailand.

We report the draft genome sequence of Gloeocapsa sp. BRSZ isolated from Bo Khlueng hot spring in Thailand, comprising 42 contigs assembled at the scaffold level, totaling 6,084,403 bp, with 43.5% G + C content. It contains 5,456 putative protein-coding genes, including genes responsible for biosynthesis of mycosporine-like amino acids.

A Review of Pangasiid Catfish Genomics for Conservation and Aquaculture: Current Status and Way Forward

Due to its ecological and economic importance, the family Pangasiidae has been the focus of considerable biological and genetic research. This family includes thirty species of catfish distributed among four genera: Helicophagus, Pangasianodon, Pangasius, and Pseudolais within the order Siluriformes. In recent years, genomic-scale data for a wide range of aquatic species have been more easily available and accessible through next-generation sequencing. Draft genome sequences of numerous fishes have been the basis for many downstream investigations. However, although genomic-based technologies allow for the collection of robust data, there is a dearth of research on pangasiid catfishes, which could potentially enhance fisheries’ management and aquaculture. To realise its aquaculture potential and strategise the conservation of this family, fundamental knowledge of its biology, genetics, and genomics, among others, is critical. This review focuses on the current molecular knowledge of the family Pangasiidae, the remaining gaps, and the challenges faced in closing these gaps.

Genome resource announcement for emerging pathogen Bipolaris gigantea, isolated from Microstegium vimineum

Bipolaris gigantea is a pathogen of the invasive grass Microstegium vimineum and an emerging pathogen of other hosts such as hemp and barley, causing characteristic eyespot foliar lesions. The fungus is characterized by long pale hyaline conidia measuring about 300 to 350 μm. Previously, this pathogen was classified in the Drechslera genus, and recently reassigned as Bipolaris based on molecular identification. Here, we generated a high-quality draft genome sequence of B. gigantea isolate BGF using long and short read DNA sequencing. The assembled genome, 30.23 Mb in size with a BUSCO completeness score of 98.4%, exhibited synteny with the common grass pathogen B. sorokiniana isolate 10943. Average nucleotide identity (ANI) and single nucleotide polymorphisms (SNP) analyses revealed high sequence identity with B. gigantea isolates from Cannabis sativa fields in Kentucky. This research provides a genomic resource that will contribute to future studies to understand the host range evolution and pathogenicity of this novel pathogen.

Draft genome sequence of Methyloversatilis sp. strain NSM2, isolated from a wastewater treatment plant.

Here, we report the draft genome sequence of Methyloversatilis sp. NSM2, isolated from a wastewater treatment plant. This strain was enriched using methane as the sole carbon source. The 4.5-Mb genome, with a GC content of 66.5%, provides valuable insights into the strain's ecological role and metabolic capabilities.

The draft genome sequence of a carbapenem-resistant Klebsiella pneumoniae strain belonging to sequence type 11 and capsular type 62.

Carbapenem-resistant Klebsiella pneumoniae (CRKP) of sequence type 11 (ST11) and capsular type KL47 or KL64 are dominant in China. We report the draft genome sequence of an ST11 blaKPC-2-carrying CRKP strain belonging to uncommon capsular type KL62. This strain carries virulence factors encoding multiple iron acquisition systems and mucoid regulators.

Draft genome sequences of four plant-associated free-living diazotrophs isolated from the rhizosphere of Malian tomato.

This announcement reports the draft genome sequences of two Azospirillum argentinense and two Azotobacter salinestris isolated from the rhizosphere of a tomato plant grown in a village in the Republic of Mali. These strains are plant growth-promoting rhizobacteria and are highly valuable to agriculture for their ability to fix atmospheric nitrogen.

Draft genome sequences of Listeria monocytogenes strains from human listeriosis in Sweden harboring premature stop codons in the virulence determinant inlA.

Premature stop codons in the internalin virulence determinant inlA are common in serotype 1/2a Listeria monocytogenes from food/food processing environments but rare among human clinical isolates. Here, we report the genome sequences of serotype 1/2a (STs 121 and 3258) human listeriosis isolates from Sweden harboring such mutations in inlA.

Draft genome sequence of Pseudomonas sp. ZS001 isolated from peanut plantation soil.

Pseudomonas sp. ZS001 is a bacterium potentially degrading soluble starch isolated from peanut plantation soil sprayed with starch-based material in Dasi Town, Tianjin. Reporting the genome sequence of strain ZS001 can help us understand the genome composition, potential functional characteristics, and application value of Pseudomonas members at the genetic level.

Draft genome sequence of Mycolicibacterium conceptionense isolated from the sputum sample of a patient with pulmonary tuberculosis.

We report the draft genome of Mycolicibacterium conceptionense, a rapidly growing nontuberculous mycobacterium, isolated from the sputum sample of a patient undergoing treatment for multidrug-resistant tuberculosis in Delhi, India. The 6,366,717-bp genome contains 6,124 coding sequences, one 5S rRNA, three 16S rRNAs, six 23S rRNAs, and 49 tRNAs.

Draft genome sequencing of multidrug-resistant Pseudomonas asiatica strains isolated from dairy cows with clinical mastitis and their farm environment.

We report, for the first time, the draft genomes of four multidrug-resistant Pseudomonas asiatica strains isolated from milk (2M1), feces (2F1 and 2F2), and farm soil (2S1) samples of dairy cows with clinical mastitis. The assembled genomes of these strains were 5.7 Mbp, 62.8% G + C content, and 50× genome coverage.

Draft genome sequencing of multidrug-resistant Pseudomonas putida strains, isolated from dairy cows with clinical mastitis and their farm environment.

We sequenced the genomes of three multidrug-resistant Pseudomonas putida strains namely 11CM-M1, 11CM-F1, and 11CM-S1, isolated from milk, feces, and farm soil samples collected from dairy cows with clinical mastitis. The assembled draft genomes of these P. putida strains were approximately 5.6 Mbp, with a GC content of 62.4%.

High-quality draft genome of Lactiplantibacillus plantarum strain APC2688 isolated from human feces.

Lactiplantibacillus plantarum is a commensal bacterial species often found within the human gut. To expand our knowledge about this human-associated taxon with potential probiotic properties, here we present the draft genome sequence of Lactiplantibacillus plantarum strain APC2688, isolated from a human fecal sample.

Draft genome sequence of non-pathogenic Escherichia coli 5C LMG S-33222, isolated from healthy donor feces.

We present the genome sequence of Escherichia coli 5C LMG S-33222, a non-pathogenic microorganism with potential probiotic features. The strain was isolated in 2021 from a fecal sample of a healthy Italian infant. The total genome size is 4,712,575 bp with a G + C content of 51%.

Draft genome of the caprolactam-degrading Paenarthrobacter sp. CAP02 isolated from a landfill.

Here, we report the draft genome sequence of Paenarthrobacter sp. CAP02, which metabolizes caprolactam as a sole source of carbon and nitrogen. This bacterium was isolated from Dane County Landfill Site No. 2 in Madison, WI, USA.

Draft genome sequence of Bacillus velezensis endophytically isolated from roots of Polygala paniculata.

Polygala paniculata is a medicinal plant that harbors a remaining unknown microbiome. Those plants are known for their analgesic and anti-inflammatory properties and are widely found in the Brazilian Atlantic Forest. Herein, we report the isolation of the endophyte Bacillus velezensis GPP30 with a draft genome estimated at 4.0 Mpb.

Erratum for Ogunyemi et al., "Draft genome sequence of Bacillus safensis strain WOIS2 KX774194, a nitrile-metabolizing bacterium isolated from solid waste leachates at Olusosun dumpsite, Ojota, Lagos State, Nigeria".

Erratum for Ogunyemi et al., "Draft genome sequence of Bacillus safensis strain WOIS2 KX774194, a nitrile-metabolizing bacterium isolated from solid waste leachates at Olusosun dumpsite, Ojota, Lagos State, Nigeria".

Draft genome sequences of Butyrivibrio hungatei DSM 14810 (JK 615T) and Butyrivibrio fibrisolvens DSM 3071 (D1T).

Here, we report the draft genome sequences of two Butyrivibrio-type strains isolated from rumen fluid. The genome sequence of Butyrivibrio hungatei DSM 14810 was 3.3 Mb with 3,093 predicted genes, while the Butyrivibrio fibrisolvens DSM 3071 genome sequence was 4.8 Mb with 4,132 predicted genes.

Draft genome sequence of Rhodotorula sp. BUB8, an oleaginous yeast isolated from Mt. Makiling Forest Reserve, Laguna, Philippines.

This paper reports the draft genome sequence of Rhodotorula sp. BUB8, an oleaginous yeast isolated from the forest canopy of Mt. Makiling Forest Reserve in the Philippines. The draft genome is 20,394,133 bp with 64.3% guanine-cytosine (GC) content, 6,604 coding genes, 109 tRNA coding, and 6 snRNA-coding genes.