Browse
Submit Data
Databases
API
Help

Dataset Information

0 Views

0 Connections

0 Citations

0 Reanalyses

0 Downloads

Omics score: 0

Genome Sequences of Actinobacteria from Extreme Environments in Colombia.

ABSTRACT: We sequenced six actinobacterial genomes isolated from a salt mine and from soil in a high-mountain Páramo ecosystem. The strains belonged to the genera Streptomyces, Nesterenkonia, and Isoptericola and were sequenced due to their antimicrobial and cytotoxic activities.

SUBMITTER: Cantillo A

PROVIDER: S-EPMC6284094 | biostudies-literature | 2018 Dec

REPOSITORIES: biostudies-literature

ACCESS DATA

Json Xml

Publications

Genome Sequences of Actinobacteria from Extreme Environments in Colombia.

Cantillo Angela A Shapiro Nicole N Woyke Tanja T Kyrpides Nikos C NC Baena Sandra S Zambrano María Mercedes MM

Microbiology resource announcements 20181206 22

We sequenced six actinobacterial genomes isolated from a salt mine and from soil in a high-mountain Páramo ecosystem. The strains belonged to the genera Streptomyces, Nesterenkonia, and Isoptericola and were sequenced due to their antimicrobial and cytotoxic activities. ...[more]

PMID: 30533862

Similar Datasets

Extreme environments

Project description:Extreme environments Raw sequence reads

| PRJNA885566 | ENA

Antarctic blackfin icefish genome reveals adaptations to extreme environments.

Project description:Icefishes (suborder Notothenioidei; family Channichthyidae) are the only vertebrates that lack functional haemoglobin genes and red blood cells. Here, we report a high-quality genome assembly and linkage map for the Antarctic blackfin icefish Chaenocephalus aceratus, highlighting evolved genomic features for its unique physiology. Phylogenomic analysis revealed that Antarctic fish of the teleost suborder Notothenioidei, including icefishes, diverged from the stickleback lineage about 77 million years ago and subsequently evolved cold-adapted phenotypes as the Southern Ocean cooled to sub-zero temperatures. Our results show that genes involved in protection from ice damage, including genes encoding antifreeze glycoprotein and zona pellucida proteins, are highly expanded in the icefish genome. Furthermore, genes that encode enzymes that help to control cellular redox state, including members of the sod3 and nqo1 gene families, are expanded, probably as evolutionary adaptations to the relatively high concentration of oxygen dissolved in cold Antarctic waters. In contrast, some crucial regulators of circadian homeostasis (cry and per genes) are absent from the icefish genome, suggesting compromised control of biological rhythms in the polar light environment. The availability of the icefish genome sequence will accelerate our understanding of adaptation to extreme Antarctic environments.

| S-EPMC7307600 | biostudies-literature

Draft Genome Sequences of 13 Plant-Associated Actinobacteria of the Family Microbacteriaceae.

Project description:Draft genome sequences of 13 bacterial strains from the family Microbacteriaceae were generated using Illumina technology. The genome sizes varied from 3.0 to 4.8 Mb, and the DNA G+C content was 68.1 to 72.5%. The sequences obtained will contribute to the development of genome-based taxonomy and understanding of molecular interactions between bacteria and plants.

| S-EPMC7498432 | biostudies-literature

Draft Genome Sequences of Corynebacterium diphtheriae Clinical Isolates from Colombia.

Project description:Since the implementation of the diphtheria-tetanus-pertussis (DTP) vaccine in Colombia, there has been a decrease in the reporting of cases. Here, we report two isolates of Corynebacterium diphtheriae bv. mitis isolated in the reference laboratory at Instituto Nacional de Salud from samples received from Norte de Santander and La Guajira; both areas are located on the northeast border of Colombia.

| S-EPMC8297446 | biostudies-literature

Draft Genome Sequences of 29 Helicobacter pylori Strains Isolated from Colombia.

Project description:Here, we present the draft genome sequences of 29 Colombian Helicobacter pylori strains. These strains were isolated in Bogotá, Colombia, from patients diagnosed with chronic gastritis. The genomic characterization of these strains will provide more information on the genetic composition of H. pylori strains from Colombia.

| S-EPMC8142565 | biostudies-literature

An Antarctic lichen isolate (Cladonia borealis) genome reveals potential adaptation to extreme environments.

Project description:Cladonia borealis is a lichen that inhabits Antarctica's harsh environment. We sequenced the whole genome of a C. borealis culture isolated from a specimen collected in Antarctica using long-read sequencing technology to identify specific genetic elements related to its potential environmental adaptation. The final genome assembly produced 48 scaffolds, the longest being 2.2 Mbp, a 1.6 Mbp N50 contig length, and a 36 Mbp total length. A total of 10,749 protein-coding genes were annotated, containing 33 biosynthetic gene clusters and 102 carbohydrate-active enzymes. A comparative genomics analysis was conducted on six Cladonia species, and the genome of C. borealis exhibited 45 expanded and 50 contracted gene families. We identified that C. borealis has more Copia transposable elements and expanded transporters (ABC transporters and magnesium transporters) compared to other Cladonia species. Our results suggest that these differences contribute to C. borealis' remarkable adaptability in the Antarctic environment. This study also provides a useful resource for the genomic analysis of lichens and genetic insights into the survival of species isolated from Antarctica.

| S-EPMC10792129 | biostudies-literature

Genome sequencing of deep-sea hydrothermal vent snails reveals adaptions to extreme environments.

Project description:BackgroundThe scaly-foot snail (Chrysomallon squamiferum) is highly adapted to deep-sea hydrothermal vents and has drawn much interest since its discovery. However, the limited information on its genome has impeded further related research and understanding of its adaptation to deep-sea hydrothermal vents.FindingsHere, we report the whole-genome sequencing and assembly of the scaly-foot snail and another snail (Gigantopelta aegis), which inhabits similar environments. Using Oxford Nanopore Technology, 10X Genomics, and Hi-C technologies, we obtained a chromosome-level genome of C. squamiferum with an N50 size of 20.71 Mb. By constructing a phylogenetic tree, we found that these 2 deep-sea snails evolved independently of other snails. Their divergence from each other occurred ∼66.3 million years ago. Comparative genomic analysis showed that different snails have diverse genome sizes and repeat contents. Deep-sea snails have more DNA transposons and long terminal repeats but fewer long interspersed nuclear elements than other snails. Gene family analysis revealed that deep-sea snails experienced stronger selective pressures than freshwater snails, and gene families related to the nervous system, immune system, metabolism, DNA stability, antioxidation, and biomineralization were significantly expanded in scaly-foot snails. We also found 251 H-2 Class II histocompatibility antigen, A-U α chain-like (H2-Aal) genes, which exist uniquely in the Gigantopelta aegis genome. This finding is important for investigating the evolution of major histocompatibility complex (MHC) genes.ConclusionOur study provides new insights into deep-sea snail genomes and valuable resources for further studies.

| S-EPMC7736800 | biostudies-literature

Draft Genome Sequences of Clinical and Environmental Isolates of Aspergillus tamarii from Colombia.

Project description:Aspergillus is a very diverse genus of fungi that are common in the environment and can affect human health. Here, we report the draft genome sequences of two Colombian isolates of Aspergillus tamarii, an emerging pathogenic species. One isolate was obtained from an infected patient and the other from the environment in a hospital.

| S-EPMC7118193 | biostudies-literature

Draft Genome Sequences of 16 Halophilic Prokaryotes Isolated from Diverse Environments.

Project description:Halophile-specific enzymes have wide-ranging industrial and commercial applications. Despite their importance, there is a paucity of available halophile whole-genome sequences. Here, we report the draft genome sequences of 16 diverse salt-tolerant strains of bacteria and archaea isolated from a variety of high-salt environments.

| S-EPMC7033272 | biostudies-literature

Project description: Not available

| S-EPMC9487397 | biostudies-literature