HaloWeb


31072883	Genome Sequence and Methylation Patterns of Halorubrum sp. Strain BOL3-1, the First Haloarchaeon Isolated and Cultured from Salar de Uyuni, Bolivia. [PMID: 31072883] DasSarma P, Anton BP, DasSarma S, Laye VJ, Guzman D, Roberts RJ, DasSarma S. Abstract Halorubrum sp. strain BOL3-1 was isolated from Salar de Uyuni, Bolivia, and sequenced using single-molecule real-time sequencing. Its 3.7-Mbp genome was analyzed for gene content and methylation patterns and incorporated into the Haloarchaeal Genomes Database (http://halo.umbc.edu). The polyextremophilic character and high-elevation environment make the microbe of interest for astrobiology. Microbiol Resour Announc. 2019:8(19) \| 8 Citations (from Europe PMC, 2025-12-13)
21192823	HaloWeb: the haloarchaeal genomes database. [PMID: 21192823] Dassarma SL, Capes MD, Dassarma P, Dassarma S. Abstract BACKGROUND: Complete genome sequencing together with post-genomic studies provide the opportunity for a comprehensive 'systems biology' understanding of model organisms. For maximum effectiveness, an integrated database containing genomic, transcriptomic, and proteomic data is necessary. DESCRIPTION: To improve data access and facilitate functional genomic studies on haloarchaea in our laboratory, a dedicated database and website, named HaloWeb, was developed. It incorporates all finished and publicly released haloarchaeal genomes, including gene, protein and RNA sequences and annotation data, as well as other features such as insertion element sequences. The HaloWeb database was designed for easy data access and mining, and includes tools for tasks such as genome map generation, sequence extraction, and sequence editing. Popular resources at other sites, e.g., NCBI PubMed and BLAST, COG and KOG protein clusters, KEGG pathways, and GTOP structures were dynamically linked. The HaloWeb site is located at http://halo4.umbi.umd.edu, and at a mirror site, http://halo5.umbi.umd.edu, with all public genomic data and NCBI, KEGG, and GTOP links available for use by the academic community. The database is curated and updated on a regular basis. CONCLUSIONS: The HaloWeb site includes all completely sequenced haloarchaeal genomes from public databases. It is currently being used as a tool for comparative genomics, including analysis of gene and genome structure, organization, and function. The database and website are up-to-date resources for researchers worldwide. Saline Systems. 2010:6() \| 31 Citations (from Europe PMC, 2025-12-13)

Genome Sequence and Methylation Patterns of Halorubrum sp. Strain BOL3-1, the First Haloarchaeon Isolated and Cultured from Salar de Uyuni, Bolivia. [PMID: 31072883]

DasSarma P, Anton BP, DasSarma S, Laye VJ, Guzman D, Roberts RJ, DasSarma S.

Abstract

Halorubrum sp. strain BOL3-1 was isolated from Salar de Uyuni, Bolivia, and sequenced using single-molecule real-time sequencing. Its 3.7-Mbp genome was analyzed for gene content and methylation patterns and incorporated into the Haloarchaeal Genomes Database (http://halo.umbc.edu). The polyextremophilic character and high-elevation environment make the microbe of interest for astrobiology.

Microbiol Resour Announc. 2019:8(19) | 8 Citations (from Europe PMC, 2025-12-13)

HaloWeb: the haloarchaeal genomes database. [PMID: 21192823]

Dassarma SL, Capes MD, Dassarma P, Dassarma S.

Abstract

BACKGROUND: Complete genome sequencing together with post-genomic studies provide the opportunity for a comprehensive 'systems biology' understanding of model organisms. For maximum effectiveness, an integrated database containing genomic, transcriptomic, and proteomic data is necessary.
DESCRIPTION: To improve data access and facilitate functional genomic studies on haloarchaea in our laboratory, a dedicated database and website, named HaloWeb, was developed. It incorporates all finished and publicly released haloarchaeal genomes, including gene, protein and RNA sequences and annotation data, as well as other features such as insertion element sequences. The HaloWeb database was designed for easy data access and mining, and includes tools for tasks such as genome map generation, sequence extraction, and sequence editing. Popular resources at other sites, e.g., NCBI PubMed and BLAST, COG and KOG protein clusters, KEGG pathways, and GTOP structures were dynamically linked. The HaloWeb site is located at http://halo4.umbi.umd.edu, and at a mirror site, http://halo5.umbi.umd.edu, with all public genomic data and NCBI, KEGG, and GTOP links available for use by the academic community. The database is curated and updated on a regular basis.
CONCLUSIONS: The HaloWeb site includes all completely sequenced haloarchaeal genomes from public databases. It is currently being used as a tool for comparative genomics, including analysis of gene and genome structure, organization, and function. The database and website are up-to-date resources for researchers worldwide.

Saline Systems. 2010:6() | 31 Citations (from Europe PMC, 2025-12-13)

URL:	https://halo.umbc.edu/
Full name:	The haloarchaeal genomes database
Description:	The HaloWeb database was designed for easy data access and mining, and includes tools for tasks such as genome map generation, sequence extraction, and sequence editing, focusing on extremely halophilic Archaea.
Year founded:	2010
Last update:	2018
Version:	18.4
Accessibility:	Accessible
Country/Region:	United States

Data type:	DNA Protein RNA
Data object:	Archaea
Database category:	Gene genome and annotation
Major species:	Halorubrum lacusprofundi Haloarcula marismortui Haloferax volcanii Haloferax mediterranei Haloquadratum walsbyi Natronomonas pharaonis Halomicrobium mukohataei Halorhabdus utahensis Haloarcula hispanica Halogeometricum borinquense
Keywords:	haloarchaeal genome archaea

University/Institution:	University of Maryland
Address:	University of Maryland School of Medicine Institute of Marine and Environmental Technology University System of Maryland Columbus Center, 701 E. Pratt St. Baltimore, MD 21202 USA
City:	Baltimore
Province/State:	Maryland
Country/Region:	United States
Contact name (PI/Team):	Shiladitya DasSarma
Contact email (PI/Helpdesk):	sdassarma@som.umaryland.edu

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Database Commons a catalog of worldwide biological databases