Comparative transcriptome analysis of Ethiopian indigenous chickens from low and high altitudes under heat stress condition reveals differential immune response.
Identifieur interne : 000903 ( Main/Exploration ); précédent : 000902; suivant : 000904Comparative transcriptome analysis of Ethiopian indigenous chickens from low and high altitudes under heat stress condition reveals differential immune response.
Auteurs : W. Park [Corée du Sud] ; K. Srikanth [Corée du Sud] ; D. Lim [Corée du Sud] ; M. Park [Corée du Sud] ; T. Hur [Corée du Sud] ; S. Kemp [Kenya] ; T. Dessie [Éthiopie] ; M S Kim [Corée du Sud] ; S-R Lee [Corée du Sud] ; M F W. Te Pas [Pays-Bas] ; J-M Kim [Corée du Sud] ; J-E Park [Corée du Sud]Source :
- Animal genetics [ 1365-2052 ] ; 2019.
Descripteurs français
- KwdFr :
- MESH :
- génétique : Poulets.
- immunologie : Poulets, Réaction de choc thermique.
- Altitude, Analyse de profil d'expression de gènes, Analyse de regroupements, Animaux, Mâle, Transcriptome, Éthiopie.
- Wicri :
- geographic : Éthiopie.
English descriptors
- KwdEn :
- MESH :
- geographic : Ethiopia.
- genetics : Chickens.
- immunology : Chickens, Heat-Shock Response.
- Altitude, Animals, Cluster Analysis, Gene Expression Profiling, Male, Transcriptome.
Abstract
Ethiopia is an ecologically diverse country; the low altitude regions are hot and humid whereas the high altitude regions are cooler. In this study we analyzed the transcriptome response of high altitude (Addis Ababa) and low altitude (Awash) chickens to heat stress conditions that are prevalent in the low altitude regions. The chickens were free ranged for 20 h in an enclosure in Awash, and then the heart, breast muscle and spleen tissues were collected at 6:00 am, 12:00 noon and 6:00 pm to follow a daily circadian cycle. Through RNA-sequencing analysis, we identified differentially expressed genes (DEGs) that were significant (q < 0.05). These DEGs were subjected to protein-protein interaction (PPI) network and gene co-expression network (GCN) analyses to understand their role. KEGG pathway analysis and Gene Ontology analysis of all the identified DEGs and the genes identified from the PPI network and GCN analyses revealed that several immune-related pathways, such as proteasome, focal adhesion, influenza A, the ErbB signaling pathway and glycerophospholipid metabolism, were enriched in response to heat stress. These results suggest that the high altitude chickens were under heat stress and might be immunologically susceptible. Our findings will help in developing a genetic approach to mitigate production loss due to heat stress.
DOI: 10.1111/age.12740
PubMed: 30474213
Affiliations:
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Srikanth</name><affiliation wicri:level="1"><nlm:affiliation>Animal Genomics and Bioinformatics Division, National Institute of Animal Science, RDA, Wanju, 55365, Korea.</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Animal Genomics and Bioinformatics Division, National Institute of Animal Science, RDA, Wanju, 55365</wicri:regionArea><wicri:noRegion>55365</wicri:noRegion></affiliation></author><author><name sortKey="Lim, D" sort="Lim, D" uniqKey="Lim D" first="D" last="Lim">D. 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Box 5689, Addis Ababa</wicri:regionArea><wicri:noRegion>Addis Ababa</wicri:noRegion></affiliation></author><author><name sortKey="Kim, M S" sort="Kim, M S" uniqKey="Kim M" first="M S" last="Kim">M S Kim</name><affiliation wicri:level="1"><nlm:affiliation>Department of Animal Science, College of Agriculture and Life Sciences, Chonnam National University, Republic of Korea, Gwangju, 61186, Korea.</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Department of Animal Science, College of Agriculture and Life Sciences, Chonnam National University, Republic of Korea, Gwangju, 61186</wicri:regionArea><wicri:noRegion>61186</wicri:noRegion></affiliation></author><author><name sortKey="Lee, S R" sort="Lee, S R" uniqKey="Lee S" first="S-R" last="Lee">S-R Lee</name><affiliation wicri:level="1"><nlm:affiliation>Department of Agro-biotechnology Convergence, Jeonju University, Republic of Korea, 55069, Jeonju, Korea.</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Department of Agro-biotechnology Convergence, Jeonju University, Republic of Korea, 55069, Jeonju</wicri:regionArea><wicri:noRegion>Jeonju</wicri:noRegion></affiliation></author><author><name sortKey="Te Pas, M F W" sort="Te Pas, M F W" uniqKey="Te Pas M" first="M F W" last="Te Pas">M F W. Te Pas</name><affiliation wicri:level="1"><nlm:affiliation>Animal Breeding and Genomics, Wageningen UR Livestock Research, 6700AH, Wageningen, The Netherlands.</nlm:affiliation><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>Animal Breeding and Genomics, Wageningen UR Livestock Research, 6700AH, Wageningen</wicri:regionArea><wicri:noRegion>Wageningen</wicri:noRegion></affiliation></author><author><name sortKey="Kim, J M" sort="Kim, J M" uniqKey="Kim J" first="J-M" last="Kim">J-M Kim</name><affiliation wicri:level="1"><nlm:affiliation>Department of Animal Science and Technology, Chung-Ang University, Anseong, Gyeonggi-do, 17546, Korea.</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Department of Animal Science and Technology, Chung-Ang University, Anseong, Gyeonggi-do, 17546</wicri:regionArea><wicri:noRegion>17546</wicri:noRegion></affiliation></author><author><name sortKey="Park, J E" sort="Park, J E" uniqKey="Park J" first="J-E" last="Park">J-E Park</name><affiliation wicri:level="1"><nlm:affiliation>Animal Genomics and Bioinformatics Division, National Institute of Animal Science, RDA, Wanju, 55365, Korea.</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Animal Genomics and Bioinformatics Division, National Institute of Animal Science, RDA, Wanju, 55365</wicri:regionArea><wicri:noRegion>55365</wicri:noRegion></affiliation></author></titleStmt><publicationStmt><idno type="wicri:source">PubMed</idno><date when="2019">2019</date><idno type="RBID">pubmed:30474213</idno><idno type="pmid">30474213</idno><idno type="doi">10.1111/age.12740</idno><idno type="wicri:Area/PubMed/Corpus">000231</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Corpus" wicri:corpus="PubMed">000231</idno><idno type="wicri:Area/PubMed/Curation">000231</idno><idno type="wicri:explorRef" wicri:stream="PubMed" wicri:step="Curation">000231</idno><idno type="wicri:Area/PubMed/Checkpoint">000216</idno><idno type="wicri:explorRef" wicri:stream="Checkpoint" wicri:step="PubMed">000216</idno><idno type="wicri:Area/Ncbi/Merge">000982</idno><idno type="wicri:Area/Ncbi/Curation">000982</idno><idno type="wicri:Area/Ncbi/Checkpoint">000982</idno><idno type="wicri:Area/Main/Merge">000904</idno><idno type="wicri:Area/Main/Curation">000903</idno><idno type="wicri:Area/Main/Exploration">000903</idno></publicationStmt><sourceDesc><biblStruct><analytic><title xml:lang="en">Comparative transcriptome analysis of Ethiopian indigenous chickens from low and high altitudes under heat stress condition reveals differential immune response.</title><author><name sortKey="Park, W" sort="Park, W" uniqKey="Park W" first="W" last="Park">W. Park</name><affiliation wicri:level="1"><nlm:affiliation>Animal Genomics and Bioinformatics Division, National Institute of Animal Science, RDA, Wanju, 55365, Korea.</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Animal Genomics and Bioinformatics Division, National Institute of Animal Science, RDA, Wanju, 55365</wicri:regionArea><wicri:noRegion>55365</wicri:noRegion></affiliation></author><author><name sortKey="Srikanth, K" sort="Srikanth, K" uniqKey="Srikanth K" first="K" last="Srikanth">K. Srikanth</name><affiliation wicri:level="1"><nlm:affiliation>Animal Genomics and Bioinformatics Division, National Institute of Animal Science, RDA, Wanju, 55365, Korea.</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Animal Genomics and Bioinformatics Division, National Institute of Animal Science, RDA, Wanju, 55365</wicri:regionArea><wicri:noRegion>55365</wicri:noRegion></affiliation></author><author><name sortKey="Lim, D" sort="Lim, D" uniqKey="Lim D" first="D" last="Lim">D. Lim</name><affiliation wicri:level="1"><nlm:affiliation>Animal Genomics and Bioinformatics Division, National Institute of Animal Science, RDA, Wanju, 55365, Korea.</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Animal Genomics and Bioinformatics Division, National Institute of Animal Science, RDA, Wanju, 55365</wicri:regionArea><wicri:noRegion>55365</wicri:noRegion></affiliation></author><author><name sortKey="Park, M" sort="Park, M" uniqKey="Park M" first="M" last="Park">M. Park</name><affiliation wicri:level="1"><nlm:affiliation>Animal Breeding and Genomics Division, National Institute of Animal Science, RDA, Wanju, 55365, Korea.</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Animal Breeding and Genomics Division, National Institute of Animal Science, RDA, Wanju, 55365</wicri:regionArea><wicri:noRegion>55365</wicri:noRegion></affiliation></author><author><name sortKey="Hur, T" sort="Hur, T" uniqKey="Hur T" first="T" last="Hur">T. Hur</name><affiliation wicri:level="1"><nlm:affiliation>Animal Genomics and Bioinformatics Division, National Institute of Animal Science, RDA, Wanju, 55365, Korea.</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Animal Genomics and Bioinformatics Division, National Institute of Animal Science, RDA, Wanju, 55365</wicri:regionArea><wicri:noRegion>55365</wicri:noRegion></affiliation></author><author><name sortKey="Kemp, S" sort="Kemp, S" uniqKey="Kemp S" first="S" last="Kemp">S. Kemp</name><affiliation wicri:level="1"><nlm:affiliation>Animal Biosciences, International Livestock Research Institute (ILRI), P.O. Box 30709, Nairobi, 00100, Kenya.</nlm:affiliation><country xml:lang="fr">Kenya</country><wicri:regionArea>Animal Biosciences, International Livestock Research Institute (ILRI), P.O. Box 30709, Nairobi, 00100</wicri:regionArea><wicri:noRegion>00100</wicri:noRegion></affiliation></author><author><name sortKey="Dessie, T" sort="Dessie, T" uniqKey="Dessie T" first="T" last="Dessie">T. Dessie</name><affiliation wicri:level="1"><nlm:affiliation>Animal Biosciences, International Livestock Research Institute (ILRI), P.O. Box 5689, Addis Ababa, Ethiopia.</nlm:affiliation><country xml:lang="fr">Éthiopie</country><wicri:regionArea>Animal Biosciences, International Livestock Research Institute (ILRI), P.O. Box 5689, Addis Ababa</wicri:regionArea><wicri:noRegion>Addis Ababa</wicri:noRegion></affiliation></author><author><name sortKey="Kim, M S" sort="Kim, M S" uniqKey="Kim M" first="M S" last="Kim">M S Kim</name><affiliation wicri:level="1"><nlm:affiliation>Department of Animal Science, College of Agriculture and Life Sciences, Chonnam National University, Republic of Korea, Gwangju, 61186, Korea.</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Department of Animal Science, College of Agriculture and Life Sciences, Chonnam National University, Republic of Korea, Gwangju, 61186</wicri:regionArea><wicri:noRegion>61186</wicri:noRegion></affiliation></author><author><name sortKey="Lee, S R" sort="Lee, S R" uniqKey="Lee S" first="S-R" last="Lee">S-R Lee</name><affiliation wicri:level="1"><nlm:affiliation>Department of Agro-biotechnology Convergence, Jeonju University, Republic of Korea, 55069, Jeonju, Korea.</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Department of Agro-biotechnology Convergence, Jeonju University, Republic of Korea, 55069, Jeonju</wicri:regionArea><wicri:noRegion>Jeonju</wicri:noRegion></affiliation></author><author><name sortKey="Te Pas, M F W" sort="Te Pas, M F W" uniqKey="Te Pas M" first="M F W" last="Te Pas">M F W. Te Pas</name><affiliation wicri:level="1"><nlm:affiliation>Animal Breeding and Genomics, Wageningen UR Livestock Research, 6700AH, Wageningen, The Netherlands.</nlm:affiliation><country xml:lang="fr">Pays-Bas</country><wicri:regionArea>Animal Breeding and Genomics, Wageningen UR Livestock Research, 6700AH, Wageningen</wicri:regionArea><wicri:noRegion>Wageningen</wicri:noRegion></affiliation></author><author><name sortKey="Kim, J M" sort="Kim, J M" uniqKey="Kim J" first="J-M" last="Kim">J-M Kim</name><affiliation wicri:level="1"><nlm:affiliation>Department of Animal Science and Technology, Chung-Ang University, Anseong, Gyeonggi-do, 17546, Korea.</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Department of Animal Science and Technology, Chung-Ang University, Anseong, Gyeonggi-do, 17546</wicri:regionArea><wicri:noRegion>17546</wicri:noRegion></affiliation></author><author><name sortKey="Park, J E" sort="Park, J E" uniqKey="Park J" first="J-E" last="Park">J-E Park</name><affiliation wicri:level="1"><nlm:affiliation>Animal Genomics and Bioinformatics Division, National Institute of Animal Science, RDA, Wanju, 55365, Korea.</nlm:affiliation><country xml:lang="fr">Corée du Sud</country><wicri:regionArea>Animal Genomics and Bioinformatics Division, National Institute of Animal Science, RDA, Wanju, 55365</wicri:regionArea><wicri:noRegion>55365</wicri:noRegion></affiliation></author></analytic><series><title level="j">Animal genetics</title><idno type="eISSN">1365-2052</idno><imprint><date when="2019" type="published">2019</date></imprint></series></biblStruct></sourceDesc></fileDesc><profileDesc><textClass><keywords scheme="KwdEn" xml:lang="en"><term>Altitude</term><term>Animals</term><term>Chickens (genetics)</term><term>Chickens (immunology)</term><term>Cluster Analysis</term><term>Ethiopia</term><term>Gene Expression Profiling</term><term>Heat-Shock Response (immunology)</term><term>Male</term><term>Transcriptome</term></keywords><keywords scheme="KwdFr" xml:lang="fr"><term>Altitude</term><term>Analyse de profil d'expression de gènes</term><term>Analyse de regroupements</term><term>Animaux</term><term>Mâle</term><term>Poulets (génétique)</term><term>Poulets (immunologie)</term><term>Réaction de choc thermique (immunologie)</term><term>Transcriptome</term><term>Éthiopie</term></keywords><keywords scheme="MESH" type="geographic" xml:lang="en"><term>Ethiopia</term></keywords><keywords scheme="MESH" qualifier="genetics" xml:lang="en"><term>Chickens</term></keywords><keywords scheme="MESH" qualifier="génétique" xml:lang="fr"><term>Poulets</term></keywords><keywords scheme="MESH" qualifier="immunologie" xml:lang="fr"><term>Poulets</term><term>Réaction de choc thermique</term></keywords><keywords scheme="MESH" qualifier="immunology" xml:lang="en"><term>Chickens</term><term>Heat-Shock Response</term></keywords><keywords scheme="MESH" xml:lang="en"><term>Altitude</term><term>Animals</term><term>Cluster Analysis</term><term>Gene Expression Profiling</term><term>Male</term><term>Transcriptome</term></keywords><keywords scheme="MESH" xml:lang="fr"><term>Altitude</term><term>Analyse de profil d'expression de gènes</term><term>Analyse de regroupements</term><term>Animaux</term><term>Mâle</term><term>Transcriptome</term><term>Éthiopie</term></keywords><keywords scheme="Wicri" type="geographic" xml:lang="fr"><term>Éthiopie</term></keywords></textClass></profileDesc></teiHeader><front><div type="abstract" xml:lang="en">Ethiopia is an ecologically diverse country; the low altitude regions are hot and humid whereas the high altitude regions are cooler. In this study we analyzed the transcriptome response of high altitude (Addis Ababa) and low altitude (Awash) chickens to heat stress conditions that are prevalent in the low altitude regions. The chickens were free ranged for 20 h in an enclosure in Awash, and then the heart, breast muscle and spleen tissues were collected at 6:00 am, 12:00 noon and 6:00 pm to follow a daily circadian cycle. Through RNA-sequencing analysis, we identified differentially expressed genes (DEGs) that were significant (q < 0.05). These DEGs were subjected to protein-protein interaction (PPI) network and gene co-expression network (GCN) analyses to understand their role. KEGG pathway analysis and Gene Ontology analysis of all the identified DEGs and the genes identified from the PPI network and GCN analyses revealed that several immune-related pathways, such as proteasome, focal adhesion, influenza A, the ErbB signaling pathway and glycerophospholipid metabolism, were enriched in response to heat stress. These results suggest that the high altitude chickens were under heat stress and might be immunologically susceptible. Our findings will help in developing a genetic approach to mitigate production loss due to heat stress.</div></front></TEI><affiliations><list><country><li>Corée du Sud</li><li>Kenya</li><li>Pays-Bas</li><li>Éthiopie</li></country></list><tree><country name="Corée du Sud"><noRegion><name sortKey="Park, W" sort="Park, W" uniqKey="Park W" first="W" last="Park">W. Park</name></noRegion><name sortKey="Hur, T" sort="Hur, T" uniqKey="Hur T" first="T" last="Hur">T. Hur</name><name sortKey="Kim, J M" sort="Kim, J M" uniqKey="Kim J" first="J-M" last="Kim">J-M Kim</name><name sortKey="Kim, M S" sort="Kim, M S" uniqKey="Kim M" first="M S" last="Kim">M S Kim</name><name sortKey="Lee, S R" sort="Lee, S R" uniqKey="Lee S" first="S-R" last="Lee">S-R Lee</name><name sortKey="Lim, D" sort="Lim, D" uniqKey="Lim D" first="D" last="Lim">D. Lim</name><name sortKey="Park, J E" sort="Park, J E" uniqKey="Park J" first="J-E" last="Park">J-E Park</name><name sortKey="Park, M" sort="Park, M" uniqKey="Park M" first="M" last="Park">M. Park</name><name sortKey="Srikanth, K" sort="Srikanth, K" uniqKey="Srikanth K" first="K" last="Srikanth">K. Srikanth</name></country><country name="Kenya"><noRegion><name sortKey="Kemp, S" sort="Kemp, S" uniqKey="Kemp S" first="S" last="Kemp">S. Kemp</name></noRegion></country><country name="Éthiopie"><noRegion><name sortKey="Dessie, T" sort="Dessie, T" uniqKey="Dessie T" first="T" last="Dessie">T. Dessie</name></noRegion></country><country name="Pays-Bas"><noRegion><name sortKey="Te Pas, M F W" sort="Te Pas, M F W" uniqKey="Te Pas M" first="M F W" last="Te Pas">M F W. Te Pas</name></noRegion></country></tree></affiliations></record>Pour manipuler ce document sous Unix (Dilib)
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