Investigation of rumen long noncoding RNA before and after weaning in cattle

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dc.contributor.authorMarceau, Alexis
dc.contributor.authorGao, Yahui
dc.contributor.authorBaldwin VI, Ransom L.
dc.contributor.authorLi, Cong-jun
dc.contributor.authorJiang, Jicai
dc.contributor.authorLiu, George E.
dc.contributor.authorMa, Li
dc.date.accessioned2022-07-25T14:53:57Z
dc.date.available2022-07-25T14:53:57Z
dc.date.issued2022-07-20
dc.description.abstractThis study aimed to identify long non-coding RNA (lncRNA) from the rumen tissue in dairy cattle, explore their features including expression and conservation levels, and reveal potential links between lncRNA and complex traits that may indicate important functional impacts of rumen lncRNA during the transition to the weaning period. A total of six cattle rumen samples were taken with three replicates from before and after weaning periods, respectively. Total RNAs were extracted and sequenced with lncRNA discovered based on size, coding potential, sequence homology, and known protein domains. As a result, 404 and 234 rumen lncRNAs were identified before and after weaning, respectively. However, only nine of them were shared under two conditions, with 395 lncRNAs found only in pre-weaning tissues and 225 only in post-weaning samples. Interestingly, none of the nine common lncRNAs were differentially expressed between the two weaning conditions. LncRNA averaged shorter length, lower expression, and lower conservation scores than the genome overall, which is consistent with general lncRNA characteristics. By integrating rumen lncRNA before and after weaning with large-scale GWAS results in cattle, we reported significant enrichment of both pre- and after-weaning lncRNA with traits of economic importance including production, reproduction, health, and body conformation phenotypes. The majority of rumen lncRNAs are uniquely expressed in one of the two weaning conditions, indicating a functional role of lncRNA in rumen development and transition of weaning. Notably, both pre- and post-weaning lncRNA showed significant enrichment with a variety of complex traits in dairy cattle, suggesting the importance of rumen lncRNA for cattle performance in the adult stage. These relationships should be further investigated to better understand the specific roles lncRNAs are playing in rumen development and cow performance.en_US
dc.description.urihttps://doi.org/10.1186/s12864-022-08758-4
dc.identifierhttps://doi.org/10.13016/oher-dsfy
dc.identifier.citationMarceau, A., Gao, Y., Baldwin , R.L. et al. Investigation of rumen long noncoding RNA before and after weaning in cattle. BMC Genomics 23, 531 (2022).en_US
dc.identifier.urihttp://hdl.handle.net/1903/29073
dc.language.isoen_USen_US
dc.publisherSpringer Natureen_US
dc.relation.isAvailableAtCollege of Agriculture & Natural Resourcesen_us
dc.relation.isAvailableAtAnimal & Avian Sciencesen_us
dc.relation.isAvailableAtDigital Repository at the University of Marylanden_us
dc.relation.isAvailableAtUniversity of Maryland (College Park, MD)en_us
dc.titleInvestigation of rumen long noncoding RNA before and after weaning in cattleen_US
dc.typeArticleen_US

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