microRNA and Other Small RNA Sequence Profiling across Six Tissues of Chinese Forest Musk Deer (Moschus berezovskii)
The Chinese forest musk deer (Moschus berezovskii) is an economically important species distributed throughout southwest China and northern Vietnam. Occurrence and development of disease are aggravated by inbreeding and genetic diversity declines in captive musk deer populations. Deep transcriptomic...
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| Veröffentlicht in: | BioMed research international 2019-01, Vol.2019 (2019), p.1-9 |
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| creator | Li, Diyan Zeng, Dejun Lei, Meiyan Mishra, Shailendra Kumar Xu, Zhongxian Zhang, Pu Jie, Hang Zhao, Guijun |
| description | The Chinese forest musk deer (Moschus berezovskii) is an economically important species distributed throughout southwest China and northern Vietnam. Occurrence and development of disease are aggravated by inbreeding and genetic diversity declines in captive musk deer populations. Deep transcriptomics investigation may provide a promising way to improve genetic health of captive and wild FMD population. MicroRNAs (miRNAs), which regulate gene expression by targeting and suppressing of mRNAs, play an important role in physiology and organism development control. In this study, RNA-seq technology was adopted to characterize the miRNA transcriptome signature among six tissues (heart, liver, spleen, lung, kidney, and muscle) in Chinese forest musk deer at two years of age. Deep sequencing generated a total of 103,261,451 (~87.87%) good quality small RNA reads; of them 6,622,520 were unique across all six tissues. A total of 2890 miRNAs were identified, among them 1129 were found to be expressed in all tissues. Moreover, coexpression of 20 miRNAs (>2000RPM) in all six tissues and top five highly expressed miRNAs in each tissue implied the crucial and particular function of them in FMD physiological processes. Our findings of forest musk deer miRNAs supplement the database of transcriptome information for this species and conduce to our understanding of forest musk deer biology. |
| doi_str_mv | 10.1155/2019/4370704 |
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Occurrence and development of disease are aggravated by inbreeding and genetic diversity declines in captive musk deer populations. Deep transcriptomics investigation may provide a promising way to improve genetic health of captive and wild FMD population. MicroRNAs (miRNAs), which regulate gene expression by targeting and suppressing of mRNAs, play an important role in physiology and organism development control. In this study, RNA-seq technology was adopted to characterize the miRNA transcriptome signature among six tissues (heart, liver, spleen, lung, kidney, and muscle) in Chinese forest musk deer at two years of age. Deep sequencing generated a total of 103,261,451 (~87.87%) good quality small RNA reads; of them 6,622,520 were unique across all six tissues. A total of 2890 miRNAs were identified, among them 1129 were found to be expressed in all tissues. Moreover, coexpression of 20 miRNAs (>2000RPM) in all six tissues and top five highly expressed miRNAs in each tissue implied the crucial and particular function of them in FMD physiological processes. Our findings of forest musk deer miRNAs supplement the database of transcriptome information for this species and conduce to our understanding of forest musk deer biology.</description><identifier>ISSN: 2314-6133</identifier><identifier>EISSN: 2314-6141</identifier><identifier>DOI: 10.1155/2019/4370704</identifier><identifier>PMID: 31214615</identifier><language>eng</language><publisher>Cairo, Egypt: Hindawi Publishing Corporation</publisher><subject>Animals ; Apoptosis ; Cancer ; Cell adhesion & migration ; China ; Deer ; Deer - genetics ; Deer - metabolism ; Developmental biology ; Foot-and-mouth disease ; Forests ; Gene expression ; Gene Expression Profiling ; Gene Expression Regulation - physiology ; Genes ; Genetic diversity ; Heart ; High-Throughput Nucleotide Sequencing ; Hypothesis testing ; Inbreeding ; Liver ; Lungs ; Medical research ; MicroRNA ; MicroRNAs ; MicroRNAs - biosynthesis ; MicroRNAs - genetics ; miRNA ; Moschidae ; Moschus berezovskii ; Muscles ; Nucleotide sequence ; Organ Specificity - physiology ; Prostate ; Ribonucleic acid ; RNA ; Spleen ; Tissues</subject><ispartof>BioMed research international, 2019-01, Vol.2019 (2019), p.1-9</ispartof><rights>Copyright © 2019 Hang Jie et al.</rights><rights>COPYRIGHT 2019 John Wiley & Sons, Inc.</rights><rights>Copyright © 2019 Hang Jie et al. This is an open access article distributed under the Creative Commons Attribution License (the “License”), which permits unrestricted use, distribution, and reproduction in any medium, provided the original work is properly cited. Notwithstanding the ProQuest Terms and Conditions, you may use this content in accordance with the terms of the License. https://creativecommons.org/licenses/by/4.0</rights><rights>Copyright © 2019 Hang Jie et al. 2019</rights><lds50>peer_reviewed</lds50><oa>free_for_read</oa><woscitedreferencessubscribed>false</woscitedreferencessubscribed><citedby>FETCH-LOGICAL-c565t-3390de992318f007ded17552d608a7055451426cb31e86d9ea5f5602bea4c2f83</citedby><cites>FETCH-LOGICAL-c565t-3390de992318f007ded17552d608a7055451426cb31e86d9ea5f5602bea4c2f83</cites><orcidid>0000-0001-7490-3550</orcidid></display><links><openurl>$$Topenurl_article</openurl><openurlfulltext>$$Topenurlfull_article</openurlfulltext><thumbnail>$$Tsyndetics_thumb_exl</thumbnail><linktopdf>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6535825/pdf/$$EPDF$$P50$$Gpubmedcentral$$Hfree_for_read</linktopdf><linktohtml>$$Uhttps://www.ncbi.nlm.nih.gov/pmc/articles/PMC6535825/$$EHTML$$P50$$Gpubmedcentral$$Hfree_for_read</linktohtml><link.rule.ids>230,314,723,776,780,881,27901,27902,53766,53768</link.rule.ids><backlink>$$Uhttps://www.ncbi.nlm.nih.gov/pubmed/31214615$$D View this record in MEDLINE/PubMed$$Hfree_for_read</backlink></links><search><contributor>Pratap, Siddharth</contributor><creatorcontrib>Li, Diyan</creatorcontrib><creatorcontrib>Zeng, Dejun</creatorcontrib><creatorcontrib>Lei, Meiyan</creatorcontrib><creatorcontrib>Mishra, Shailendra Kumar</creatorcontrib><creatorcontrib>Xu, Zhongxian</creatorcontrib><creatorcontrib>Zhang, Pu</creatorcontrib><creatorcontrib>Jie, Hang</creatorcontrib><creatorcontrib>Zhao, Guijun</creatorcontrib><title>microRNA and Other Small RNA Sequence Profiling across Six Tissues of Chinese Forest Musk Deer (Moschus berezovskii)</title><title>BioMed research international</title><addtitle>Biomed Res Int</addtitle><description>The Chinese forest musk deer (Moschus berezovskii) is an economically important species distributed throughout southwest China and northern Vietnam. Occurrence and development of disease are aggravated by inbreeding and genetic diversity declines in captive musk deer populations. Deep transcriptomics investigation may provide a promising way to improve genetic health of captive and wild FMD population. MicroRNAs (miRNAs), which regulate gene expression by targeting and suppressing of mRNAs, play an important role in physiology and organism development control. In this study, RNA-seq technology was adopted to characterize the miRNA transcriptome signature among six tissues (heart, liver, spleen, lung, kidney, and muscle) in Chinese forest musk deer at two years of age. Deep sequencing generated a total of 103,261,451 (~87.87%) good quality small RNA reads; of them 6,622,520 were unique across all six tissues. A total of 2890 miRNAs were identified, among them 1129 were found to be expressed in all tissues. Moreover, coexpression of 20 miRNAs (>2000RPM) in all six tissues and top five highly expressed miRNAs in each tissue implied the crucial and particular function of them in FMD physiological processes. Our findings of forest musk deer miRNAs supplement the database of transcriptome information for this species and conduce to our understanding of forest musk deer biology.</description><subject>Animals</subject><subject>Apoptosis</subject><subject>Cancer</subject><subject>Cell adhesion & migration</subject><subject>China</subject><subject>Deer</subject><subject>Deer - genetics</subject><subject>Deer - metabolism</subject><subject>Developmental biology</subject><subject>Foot-and-mouth disease</subject><subject>Forests</subject><subject>Gene expression</subject><subject>Gene Expression Profiling</subject><subject>Gene Expression Regulation - physiology</subject><subject>Genes</subject><subject>Genetic diversity</subject><subject>Heart</subject><subject>High-Throughput Nucleotide Sequencing</subject><subject>Hypothesis testing</subject><subject>Inbreeding</subject><subject>Liver</subject><subject>Lungs</subject><subject>Medical research</subject><subject>MicroRNA</subject><subject>MicroRNAs</subject><subject>MicroRNAs - biosynthesis</subject><subject>MicroRNAs - genetics</subject><subject>miRNA</subject><subject>Moschidae</subject><subject>Moschus berezovskii</subject><subject>Muscles</subject><subject>Nucleotide sequence</subject><subject>Organ Specificity - physiology</subject><subject>Prostate</subject><subject>Ribonucleic acid</subject><subject>RNA</subject><subject>Spleen</subject><subject>Tissues</subject><issn>2314-6133</issn><issn>2314-6141</issn><fulltext>true</fulltext><rsrctype>article</rsrctype><creationdate>2019</creationdate><recordtype>article</recordtype><sourceid>RHX</sourceid><sourceid>EIF</sourceid><sourceid>BENPR</sourceid><recordid>eNqNks1vEzEQxS0EolXojTOyxKUIQv29uxekKFBAaiki5Ww53tnE7e662Lvl469nQkIonJiLLfunN37zTMhjzl5yrvWJYLw6UbJgBVP3yKGQXE0NV_z-fi_lATnK-YphldywyjwkB5ILrgzXh2Togk_x04cZdX1NL4Y1JLroXNvSzdkCvozQe6AfU2xCG_oVdYjnTBfhG70MOY-QaWzofB16yEBPY4I80PMxX9PXgFrH5zH79ZjpEhL8iLf5OoRnj8iDxrUZjnbrhHw-fXM5fzc9u3j7fj47m3pt9DCVsmI1VBU6KRvGihpqXmgtasNKVzCtleZKGL-UHEpTV-B0ow0TS3DKi6aUE_Jqq3szLjuoPfRDcq29SaFz6buNLti_b_qwtqt4a42WuhQaBY53AiniJPJgu5A9tK3rIY7ZCqGkqjQWok__Qa_imHq0h5RkQkoh7lAr14INfROxr9-I2hlmpVmlUXJCXmypX7NO0OyfzJnd5G43udtd7og_uWtzD_9OGYHnWwBTqt3X8J9ygAw07g_N0QF-qJ8LK7xS</recordid><startdate>20190101</startdate><enddate>20190101</enddate><creator>Li, Diyan</creator><creator>Zeng, Dejun</creator><creator>Lei, Meiyan</creator><creator>Mishra, Shailendra Kumar</creator><creator>Xu, Zhongxian</creator><creator>Zhang, Pu</creator><creator>Jie, Hang</creator><creator>Zhao, Guijun</creator><general>Hindawi Publishing Corporation</general><general>Hindawi</general><general>John Wiley & Sons, Inc</general><general>Hindawi Limited</general><scope>ADJCN</scope><scope>AHFXO</scope><scope>RHU</scope><scope>RHW</scope><scope>RHX</scope><scope>CGR</scope><scope>CUY</scope><scope>CVF</scope><scope>ECM</scope><scope>EIF</scope><scope>NPM</scope><scope>AAYXX</scope><scope>CITATION</scope><scope>3V.</scope><scope>7QL</scope><scope>7QO</scope><scope>7T7</scope><scope>7TK</scope><scope>7U7</scope><scope>7U9</scope><scope>7X7</scope><scope>7XB</scope><scope>88E</scope><scope>8FD</scope><scope>8FE</scope><scope>8FG</scope><scope>8FH</scope><scope>8FI</scope><scope>8FJ</scope><scope>8FK</scope><scope>ABUWG</scope><scope>AFKRA</scope><scope>ARAPS</scope><scope>AZQEC</scope><scope>BBNVY</scope><scope>BENPR</scope><scope>BGLVJ</scope><scope>BHPHI</scope><scope>C1K</scope><scope>CCPQU</scope><scope>CWDGH</scope><scope>DWQXO</scope><scope>FR3</scope><scope>FYUFA</scope><scope>GHDGH</scope><scope>GNUQQ</scope><scope>H94</scope><scope>HCIFZ</scope><scope>K9.</scope><scope>LK8</scope><scope>M0S</scope><scope>M1P</scope><scope>M7N</scope><scope>M7P</scope><scope>P5Z</scope><scope>P62</scope><scope>P64</scope><scope>PIMPY</scope><scope>PQEST</scope><scope>PQQKQ</scope><scope>PQUKI</scope><scope>7X8</scope><scope>5PM</scope><orcidid>https://orcid.org/0000-0001-7490-3550</orcidid></search><sort><creationdate>20190101</creationdate><title>microRNA and Other Small RNA Sequence Profiling across Six Tissues of Chinese Forest Musk Deer (Moschus berezovskii)</title><author>Li, Diyan ; Zeng, Dejun ; Lei, Meiyan ; Mishra, Shailendra Kumar ; Xu, Zhongxian ; Zhang, Pu ; Jie, Hang ; Zhao, Guijun</author></sort><facets><frbrtype>5</frbrtype><frbrgroupid>cdi_FETCH-LOGICAL-c565t-3390de992318f007ded17552d608a7055451426cb31e86d9ea5f5602bea4c2f83</frbrgroupid><rsrctype>articles</rsrctype><prefilter>articles</prefilter><language>eng</language><creationdate>2019</creationdate><topic>Animals</topic><topic>Apoptosis</topic><topic>Cancer</topic><topic>Cell adhesion & migration</topic><topic>China</topic><topic>Deer</topic><topic>Deer - 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Academic</collection><collection>PubMed Central (Full Participant titles)</collection><jtitle>BioMed research international</jtitle></facets><delivery><delcategory>Remote Search Resource</delcategory><fulltext>fulltext</fulltext></delivery><addata><au>Li, Diyan</au><au>Zeng, Dejun</au><au>Lei, Meiyan</au><au>Mishra, Shailendra Kumar</au><au>Xu, Zhongxian</au><au>Zhang, Pu</au><au>Jie, Hang</au><au>Zhao, Guijun</au><au>Pratap, Siddharth</au><format>journal</format><genre>article</genre><ristype>JOUR</ristype><atitle>microRNA and Other Small RNA Sequence Profiling across Six Tissues of Chinese Forest Musk Deer (Moschus berezovskii)</atitle><jtitle>BioMed research international</jtitle><addtitle>Biomed Res Int</addtitle><date>2019-01-01</date><risdate>2019</risdate><volume>2019</volume><issue>2019</issue><spage>1</spage><epage>9</epage><pages>1-9</pages><issn>2314-6133</issn><eissn>2314-6141</eissn><abstract>The Chinese forest musk deer (Moschus berezovskii) is an economically important species distributed throughout southwest China and northern Vietnam. Occurrence and development of disease are aggravated by inbreeding and genetic diversity declines in captive musk deer populations. Deep transcriptomics investigation may provide a promising way to improve genetic health of captive and wild FMD population. MicroRNAs (miRNAs), which regulate gene expression by targeting and suppressing of mRNAs, play an important role in physiology and organism development control. In this study, RNA-seq technology was adopted to characterize the miRNA transcriptome signature among six tissues (heart, liver, spleen, lung, kidney, and muscle) in Chinese forest musk deer at two years of age. Deep sequencing generated a total of 103,261,451 (~87.87%) good quality small RNA reads; of them 6,622,520 were unique across all six tissues. A total of 2890 miRNAs were identified, among them 1129 were found to be expressed in all tissues. Moreover, coexpression of 20 miRNAs (>2000RPM) in all six tissues and top five highly expressed miRNAs in each tissue implied the crucial and particular function of them in FMD physiological processes. Our findings of forest musk deer miRNAs supplement the database of transcriptome information for this species and conduce to our understanding of forest musk deer biology.</abstract><cop>Cairo, Egypt</cop><pub>Hindawi Publishing Corporation</pub><pmid>31214615</pmid><doi>10.1155/2019/4370704</doi><tpages>9</tpages><orcidid>https://orcid.org/0000-0001-7490-3550</orcidid><oa>free_for_read</oa></addata></record> |
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| subjects | Animals Apoptosis Cancer Cell adhesion & migration China Deer Deer - genetics Deer - metabolism Developmental biology Foot-and-mouth disease Forests Gene expression Gene Expression Profiling Gene Expression Regulation - physiology Genes Genetic diversity Heart High-Throughput Nucleotide Sequencing Hypothesis testing Inbreeding Liver Lungs Medical research MicroRNA MicroRNAs MicroRNAs - biosynthesis MicroRNAs - genetics miRNA Moschidae Moschus berezovskii Muscles Nucleotide sequence Organ Specificity - physiology Prostate Ribonucleic acid RNA Spleen Tissues |
| title | microRNA and Other Small RNA Sequence Profiling across Six Tissues of Chinese Forest Musk Deer (Moschus berezovskii) |
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