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Title: Requirements and standards for organelle genome databases

Abstract

Mitochondria and plastids (collectively called organelles)descended from prokaryotes that adopted an intracellular, endosymbioticlifestyle within early eukaryotes. Comparisons of their remnant genomesaddress a wide variety of biological questions, especially when includingthe genomes of their prokaryotic relatives and the many genes transferredto the eukaryotic nucleus during the transitions from endosymbiont toorganelle. The pace of producing complete organellar genome sequences nowmakes it unfeasible to do broad comparisons using the primary literatureand, even if it were feasible, it is now becoming uncommon for journalsto accept detailed descriptions of genome-level features. Unfortunatelyno database is currently useful for this task, since they have littlestandardization and are riddled with error. Here I outline what iscurrently wrong and what must be done to make this data useful to thescientific community.

Authors:
Publication Date:
Research Org.:
Ernest Orlando Lawrence Berkeley NationalLaboratory, Berkeley, CA (US)
Sponsoring Org.:
USDOE Director, Office of Science. Office of Biological andEnvironmental Research; National Science Foundation (NSF)
OSTI Identifier:
919820
Report Number(s):
LBNL-59357
R&D Project: Y00010; BnR: 600305000; TRN: US200822%%570
DOE Contract Number:  
DE-AC02-05CH11231; NSF:EAR-0342392
Resource Type:
Journal Article
Resource Relation:
Journal Name: Journal of Integrative Biology; Journal Volume: 10; Journal Issue: 2; Related Information: Journal Publication Date: 06/2006
Country of Publication:
United States
Language:
English
Subject:
59 BASIC BIOLOGICAL SCIENCES; CELL CONSTITUENTS; GENES; MITOCHONDRIA; STANDARDIZATION; DATA BASE MANAGEMENT; database organelle plastid chloroplast mitochondria prokaryoteeukaroyte evolution endosymbiont

Citation Formats

Boore, Jeffrey L. Requirements and standards for organelle genome databases. United States: N. p., 2006. Web. doi:10.1089/omi.2006.10.119.
Boore, Jeffrey L. Requirements and standards for organelle genome databases. United States. doi:10.1089/omi.2006.10.119.
Boore, Jeffrey L. Mon . "Requirements and standards for organelle genome databases". United States. doi:10.1089/omi.2006.10.119. https://www.osti.gov/servlets/purl/919820.
@article{osti_919820,
title = {Requirements and standards for organelle genome databases},
author = {Boore, Jeffrey L.},
abstractNote = {Mitochondria and plastids (collectively called organelles)descended from prokaryotes that adopted an intracellular, endosymbioticlifestyle within early eukaryotes. Comparisons of their remnant genomesaddress a wide variety of biological questions, especially when includingthe genomes of their prokaryotic relatives and the many genes transferredto the eukaryotic nucleus during the transitions from endosymbiont toorganelle. The pace of producing complete organellar genome sequences nowmakes it unfeasible to do broad comparisons using the primary literatureand, even if it were feasible, it is now becoming uncommon for journalsto accept detailed descriptions of genome-level features. Unfortunatelyno database is currently useful for this task, since they have littlestandardization and are riddled with error. Here I outline what iscurrently wrong and what must be done to make this data useful to thescientific community.},
doi = {10.1089/omi.2006.10.119},
journal = {Journal of Integrative Biology},
number = 2,
volume = 10,
place = {United States},
year = {Mon Jan 09 00:00:00 EST 2006},
month = {Mon Jan 09 00:00:00 EST 2006}
}