MiST 3.0: Microbial Signal Transduction database

Abbreviation:MiST

General Information

Bacteria and archaea employ dedicated signal transduction systems that modulate gene expression, second-messenger turnover, quorum sensing, biofilm formation, motility, host-pathogen and beneficial interactions. The updated Microbial Signal Transduction (MiST) database provides a comprehensive classification of microbial signal transduction systems. This update is a result of a substantial scaling to accommodate constantly growing microbial genomic data. More than 125,000 genomes, 516 million genes and almost 100 million unique protein sequences are currently stored in the database. For each bacterial and archaeal genome, MiST 3.0 provides a complete signal transduction profile, thus facilitating theoretical and experimental studies on signal transduction and gene regulation. New software infrastructure and distributed pipeline implemented in MiST 3.0 enable regular genome updates based on the NCBI RefSeq database. A novel MiST feature is the integration of unique profile HMMs to link complex chemosensory systems with corresponding chemoreceptors in bacterial and archaeal genomes.

Homepage https://mistdb.com/

Countries that developed this resource United States

Created in 2019

Taxonomic range

Archaea

Bacteria

Knowledge Domains

Subjects

User-defined Tags

Chemotaxis

One-component systems

Protein domains

Signal Transduction

Two-component systems

How to cite this record FAIRsharing.org: MiST; MiST 3.0: Microbial Signal Transduction database; DOI: https://doi.org/10.25504/FAIRsharing.etXuEk; Last edited: Dec. 19, 2019, 11:06 a.m.; Last accessed: Oct 23 2020 12:28 p.m.

Publication for citation MiST 3.0: an updated microbial signal transduction database with an emphasis on chemosensory systems Vadim M Gumerov, Davi R Ortega, Ogun Adebali, Luke E Ulrich, Igor B Zhulin; Nucleic Acids Research ; 2019; 10.1093/nar/gkz988;

This record is maintained by Netuns ORCID

Record added: Oct. 21, 2019, 11:16 p.m.
Record updated: Nov. 22, 2019, 8:23 p.m. by Netuns.

Show edit history

Edits to 'https://fairsharing.org/FAIRsharing.etXuEk' by 'Netuns' at 20:23, 22 Nov 2019 (approved):

	'publications' has been modified:
		Before:
			The MiST2 database: a comprehensive genomics resource on microbial signal transduction.|Ulrich LE,Zhulin IB|Nucleic Acids Res|2009
		After:
			MiST 3.0: an updated microbial signal transduction database with an emphasis on chemosensory systems|Vadim M Gumerov, Davi R Ortega, Ogun Adebali, Luke E Ulrich, Igor B Zhulin|Nucleic Acids Research|2019
		Added:
			MiST 3.0: an updated microbial signal transduction database with an emphasis on chemosensory systems|Vadim M Gumerov, Davi R Ortega, Ogun Adebali, Luke E Ulrich, Igor B Zhulin|Nucleic Acids Research|2019
		Removed:
			The MiST2 database: a comprehensive genomics resource on microbial signal transduction.|Ulrich LE,Zhulin IB|Nucleic Acids Res|2009

Edits to 'https://fairsharing.org/FAIRsharing.etXuEk' by 'The FAIRsharing Team' at 11:13, 22 Oct 2019 (approved):

	'organizations' has been modified:
		Before:
			National Institutes of Health (NIH), Bethesda, MD, USA|http://www.nih.gov|Funds
		After:
			National Institutes of Health (NIH), Bethesda, MD, USA|http://www.nih.gov|Funds
			Ohio State University, Columbus, Ohio, United States|https://www.osu.edu/|Maintains
		Added:
			Ohio State University, Columbus, Ohio, United States|https://www.osu.edu/|Maintains
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	'supportLinks' has been modified:
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		After:
			email|gumerov.1@osu.edu
			help|https://mistdb.com/help
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			email|gumerov.1@osu.edu
			help|https://mistdb.com/help
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	'publications' has been modified:
		Before:
		After:
			The MiST2 database: a comprehensive genomics resource on microbial signal transduction.|Ulrich LE,Zhulin IB|Nucleic Acids Res|2009
		Added:
			The MiST2 database: a comprehensive genomics resource on microbial signal transduction.|Ulrich LE,Zhulin IB|Nucleic Acids Res|2009
		Removed:

Edits to 'https://fairsharing.org/FAIRsharing.etXuEk' by 'Netuns' at 23:20, 21 Oct 2019 (approved):

	'name' has been modified:
		Before: MiST: Microbial Signal Transduction database
		After: MiST 3.0: Microbial Signal Transduction database

Edits to 'https://fairsharing.org/FAIRsharing.etXuEk' by 'Netuns' at 23:19, 21 Oct 2019 (approved):

	'onto_domains' has been modified:
		Before:
			Receptor
			genome
			signaling
		After:
			Protein domain
			Receptor
			genome
			signaling
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			Protein domain
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In Collections

RDA Covid-19 WG Resources

Support

General

support email	Contact
help	Help Pages

Additional Information

Contact

Vadim Gumerov ORCID

Tools

No tools defined

Access / Retrieve Data

Conditions of Use

REST Web Services

MiST API

http://api.mistdb.com

Publications

MiST 3.0: an updated microbial signal transduction database with an emphasis on chemosensory systems

Vadim M Gumerov, Davi R Ortega, Ogun Adebali, Luke E Ulrich, Igor B Zhulin
Nucleic Acids Research 2019

View Publication

Related Standards

Reporting Guidelines

No guidelines defined

Terminology Artifacts

No semantic standards defined

Models and Formats

No syntax standards defined

Identifier Schemas

No identifier schema standards defined

Metrics

No metrics standards defined

Related Databases

Implementing Policies

This record is not implemented by any policy.

Credit

Record Maintainer

This record is maintained by Netuns ORCID

Funds

National Institutes of Health (NIH), Bethesda, MD, USA (Government body)

Maintains

Ohio State University, Columbus, Ohio, United States (University) Lead

Grant Number(s)

R01DE024463 (National Institutes of Health (NIH), Bethesda, MD, USA)
R35GM131760 (National Institutes of Health (NIH), Bethesda, MD, USA)

MiST 3.0: Microbial Signal Transduction database

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