Discovery and evaluation of candidate sex-determining genes and xenobiotics in the gonads of lake sturgeon (Acipenser fulvescens).
Identifieur interne : 000774 ( Main/Curation ); précédent : 000773; suivant : 000775Discovery and evaluation of candidate sex-determining genes and xenobiotics in the gonads of lake sturgeon (Acipenser fulvescens).
Auteurs : Matthew C. Hale [États-Unis] ; James R. Jackson ; J Andrew DewoodySource :
- Genetica [ 1573-6857 ] ; 2010.
English descriptors
- KwdEn :
- Animals, DNA, Complementary (chemistry), DNA, Complementary (genetics), Female, Fish Proteins (genetics), Fishes (genetics), Gene Library, Gene Transfer, Horizontal, Gonads (metabolism), Male, Sequence Analysis, DNA, Sex Determination Processes (genetics), Sex Differentiation (genetics), Transcription Factors (genetics).
- MESH :
- chemical , chemistry : DNA, Complementary.
- chemical , genetics : DNA, Complementary, Fish Proteins, Transcription Factors.
- genetics : Fishes, Sex Determination Processes, Sex Differentiation.
- metabolism : Gonads.
- Animals, Female, Gene Library, Gene Transfer, Horizontal, Male, Sequence Analysis, DNA.
Abstract
Modern pyrosequencing has the potential to uncover many interesting aspects of genome evolution, even in lineages where genomic resources are scarce. In particular, 454 pyrosequencing of nonmodel species has been used to characterize expressed sequence tags, xenobiotics, gene ontologies, and relative levels of gene expression. Herein, we use pyrosequencing to study the evolution of genes expressed in the gonads of a polyploid fish, the lake sturgeon (Acipenser fulvescens). Using 454 pyrosequencing of transcribed genes, we produced more than 125 MB of sequence data from 473,577 high-quality sequencing reads. Sequences that passed stringent quality control thresholds were assembled into 12,791 male contigs and 32,629 female contigs. Average depth of coverage was 4.2 x for the male assembly and 5.5x for the female assembly. Analytical rarefaction indicates that our assemblies include most of the genes expressed in lake sturgeon gonads. Over 86,700 sequencing reads were assigned gene ontologies, many to general housekeeping genes like protein, RNA, and ion binding genes. We searched specifically for sex determining genes and documented significant sex differences in the expression of two genes involved in animal sex determination, DMRT1 and TRA-1. DMRT1 is the master sex determining gene in birds and in medaka (Oryzias latipes) whereas TRA-1 helps direct sexual differentiation in nematodes. We also searched the lake sturgeon assembly for evidence of xenobiotic organisms that may exist as endosymbionts. Our results suggest that exogenous parasites (trematodes) and pathogens (protozoans) apparently have infected lake sturgeon gonads, and the trematodes have horizontally transferred some genes to the lake sturgeon genome.
DOI: 10.1007/s10709-010-9455-y
PubMed: 20386959
Links toward previous steps (curation, corpus...)
- to stream PubMed, to step Corpus: Pour aller vers cette notice dans l'étape Curation :000387
- to stream PubMed, to step Curation: Pour aller vers cette notice dans l'étape Curation :000387
- to stream PubMed, to step Checkpoint: Pour aller vers cette notice dans l'étape Curation :000387
- to stream Ncbi, to step Merge: Pour aller vers cette notice dans l'étape Curation :000326
- to stream Ncbi, to step Curation: Pour aller vers cette notice dans l'étape Curation :000326
- to stream Ncbi, to step Checkpoint: Pour aller vers cette notice dans l'étape Curation :000326
- to stream Main, to step Merge: Pour aller vers cette notice dans l'étape Curation :000787
Links to Exploration step
pubmed:20386959Le document en format XML
<record><TEI><teiHeader><fileDesc><titleStmt><title xml:lang="en">Discovery and evaluation of candidate sex-determining genes and xenobiotics in the gonads of lake sturgeon (Acipenser fulvescens).</title><author><name sortKey="Hale, Matthew C" sort="Hale, Matthew C" uniqKey="Hale M" first="Matthew C" last="Hale">Matthew C. Hale</name><affiliation wicri:level="1"><nlm:affiliation>Department of Forestry and Natural Resources, Purdue University, West Lafayette, IN, 47906, USA. mchale@purdue.edu</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Forestry and Natural Resources, Purdue University, West Lafayette, IN, 47906</wicri:regionArea><wicri:noRegion>47906</wicri:noRegion></affiliation></author><author><name sortKey="Jackson, James R" sort="Jackson, James R" uniqKey="Jackson J" first="James R" last="Jackson">James R. Jackson</name></author><author><name sortKey="Dewoody, J Andrew" sort="Dewoody, J Andrew" uniqKey="Dewoody J" first="J Andrew" last="Dewoody">J Andrew Dewoody</name></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2010">2010</date><idno type="RBID">pubmed:20386959</idno><idno type="pmid">20386959</idno><idno type="doi">10.1007/s10709-010-9455-y</idno><idno type="wicri:Area/PubMed/Corpus">000387</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">000387</idno><idno type="wicri:Area/PubMed/Curation">000387</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">000387</idno><idno type="wicri:Area/PubMed/Checkpoint">000387</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">000387</idno><idno type="wicri:Area/Ncbi/Merge">000326</idno><idno type="wicri:Area/Ncbi/Curation">000326</idno><idno type="wicri:Area/Ncbi/Checkpoint">000326</idno><idno type="wicri:Area/Main/Merge">000787</idno><idno type="wicri:Area/Main/Curation">000774</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Discovery and evaluation of candidate sex-determining genes and xenobiotics in the gonads of lake sturgeon (Acipenser fulvescens).</title><author><name sortKey="Hale, Matthew C" sort="Hale, Matthew C" uniqKey="Hale M" first="Matthew C" last="Hale">Matthew C. Hale</name><affiliation wicri:level="1"><nlm:affiliation>Department of Forestry and Natural Resources, Purdue University, West Lafayette, IN, 47906, USA. mchale@purdue.edu</nlm:affiliation><country xml:lang="fr">États-Unis</country><wicri:regionArea>Department of Forestry and Natural Resources, Purdue University, West Lafayette, IN, 47906</wicri:regionArea><wicri:noRegion>47906</wicri:noRegion></affiliation></author><author><name sortKey="Jackson, James R" sort="Jackson, James R" uniqKey="Jackson J" first="James R" last="Jackson">James R. Jackson</name></author><author><name sortKey="Dewoody, J Andrew" sort="Dewoody, J Andrew" uniqKey="Dewoody J" first="J Andrew" last="Dewoody">J Andrew Dewoody</name></author></analytic><series><title level="j">Genetica</title><idno type="eISSN">1573-6857</idno><imprint><date when="2010" type="published">2010</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Animals</term><term>DNA, Complementary (chemistry)</term><term>DNA, Complementary (genetics)</term><term>Female</term><term>Fish Proteins (genetics)</term><term>Fishes (genetics)</term><term>Gene Library</term><term>Gene Transfer, Horizontal</term><term>Gonads (metabolism)</term><term>Male</term><term>Sequence Analysis, DNA</term><term>Sex Determination Processes (genetics)</term><term>Sex Differentiation (genetics)</term><term>Transcription Factors (genetics)</term></keywords><keywords scheme="MESH" type="chemical" qualifier="chemistry" xml:lang="en"><term>DNA, Complementary</term></keywords><keywords scheme="MESH" type="chemical" qualifier="genetics" xml:lang="en"><term>DNA, Complementary</term><term>Fish Proteins</term><term>Transcription Factors</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Fishes</term><term>Sex Determination Processes</term><term>Sex Differentiation</term></keywords><keywords scheme="MESH" qualifier="metabolism" xml:lang="en"><term>Gonads</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Animals</term><term>Female</term><term>Gene Library</term><term>Gene Transfer, Horizontal</term><term>Male</term><term>Sequence Analysis, DNA</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Modern pyrosequencing has the potential to uncover many interesting aspects of genome evolution, even in lineages where genomic resources are scarce. In particular, 454 pyrosequencing of nonmodel species has been used to characterize expressed sequence tags, xenobiotics, gene ontologies, and relative levels of gene expression. Herein, we use pyrosequencing to study the evolution of genes expressed in the gonads of a polyploid fish, the lake sturgeon (Acipenser fulvescens). Using 454 pyrosequencing of transcribed genes, we produced more than 125 MB of sequence data from 473,577 high-quality sequencing reads. Sequences that passed stringent quality control thresholds were assembled into 12,791 male contigs and 32,629 female contigs. Average depth of coverage was 4.2 x for the male assembly and 5.5x for the female assembly. Analytical rarefaction indicates that our assemblies include most of the genes expressed in lake sturgeon gonads. Over 86,700 sequencing reads were assigned gene ontologies, many to general housekeeping genes like protein, RNA, and ion binding genes. We searched specifically for sex determining genes and documented significant sex differences in the expression of two genes involved in animal sex determination, DMRT1 and TRA-1. DMRT1 is the master sex determining gene in birds and in medaka (Oryzias latipes) whereas TRA-1 helps direct sexual differentiation in nematodes. We also searched the lake sturgeon assembly for evidence of xenobiotic organisms that may exist as endosymbionts. Our results suggest that exogenous parasites (trematodes) and pathogens (protozoans) apparently have infected lake sturgeon gonads, and the trematodes have horizontally transferred some genes to the lake sturgeon genome.</div></front></TEI></record>Pour manipuler ce document sous Unix (Dilib)
EXPLOR_STEP=$WICRI_ROOT/Wicri/Eau/explor/EsturgeonV1/Data/Main/Curation
HfdSelect -h $EXPLOR_STEP/biblio.hfd -nk 000774 | SxmlIndent | more
Ou
HfdSelect -h $EXPLOR_AREA/Data/Main/Curation/biblio.hfd -nk 000774 | SxmlIndent | more
Pour mettre un lien sur cette page dans le réseau Wicri
{{Explor lien
|wiki= Wicri/Eau
|area= EsturgeonV1
|flux= Main
|étape= Curation
|type= RBID
|clé= pubmed:20386959
|texte= Discovery and evaluation of candidate sex-determining genes and xenobiotics in the gonads of lake sturgeon (Acipenser fulvescens).
}}
Pour générer des pages wiki
HfdIndexSelect -h $EXPLOR_AREA/Data/Main/Curation/RBID.i -Sk "pubmed:20386959" \
| HfdSelect -Kh $EXPLOR_AREA/Data/Main/Curation/biblio.hfd \
| NlmPubMed2Wicri -a EsturgeonV1
| This area was generated with Dilib version V0.6.27. |  |