{"status":"ok","message-type":"work","message-version":"1.0.0","message":{"indexed":{"date-parts":[[2025,4,13]],"date-time":"2025-04-13T01:57:33Z","timestamp":1744509453103,"version":"3.37.3"},"reference-count":112,"publisher":"American Physiological Society","issue":"10","funder":[{"name":"University of Massachusetts Center for Clinical and Translational Science"},{"name":"Eugene M and Ronnie Isenberg Professorship Endowment"},{"DOI":"10.13039\/100000071","name":"HHS | NIH | National Institute of Child Health and Human Development","doi-asserted-by":"publisher","award":["P01HD078253"],"award-info":[{"award-number":["P01HD078253"]}],"id":[{"id":"10.13039\/100000071","id-type":"DOI","asserted-by":"publisher"}]}],"content-domain":{"domain":[],"crossmark-restriction":false},"short-container-title":["Physiological Genomics"],"published-print":{"date-parts":[[2020,10,1]]},"abstract":"<jats:p> Skeletal muscles can undergo atrophy and\/or programmed cell death (PCD) during development or in response to a wide range of insults, including immobility, cachexia, and spinal cord injury. However, the protracted nature of atrophy and the presence of multiple cell types within the tissue complicate molecular analyses. One model that does not suffer from these limitations is the intersegmental muscle (ISM) of the tobacco hawkmoth Manduca sexta. Three days before the adult eclosion (emergence) at the end of metamorphosis, the ISMs initiate a nonpathological program of atrophy that results in a 40% loss of mass. The ISMs then generate the eclosion behavior and initiate a nonapoptotic PCD during the next 30 h. We have performed a comprehensive transcriptomics analysis of all mRNAs and microRNAs throughout ISM development to better understand the molecular mechanisms that mediate atrophy and death. Atrophy involves enhanced protein catabolism and reduced expression of the genes involved in respiration, adhesion, and the contractile apparatus. In contrast, PCD involves the induction of numerous proteases, DNA methylases, membrane transporters, ribosomes, and anaerobic metabolism. These changes in gene expression are largely repressed when insects are injected with the insect steroid hormone 20-hydroxyecdysone, which delays death. The expression of the death-associated proteins may be greatly enhanced by reductions in specific microRNAs that function to repress translation. This study not only provides fundamental new insights into basic developmental processes, it may also represent a powerful resource for identifying potential diagnostic markers and molecular targets for therapeutic intervention. <\/jats:p>","DOI":"10.1152\/physiolgenomics.00047.2020","type":"journal-article","created":{"date-parts":[[2020,9,14]],"date-time":"2020-09-14T19:00:58Z","timestamp":1600110058000},"page":"492-511","source":"Crossref","is-referenced-by-count":9,"title":["High-resolution analysis of differential gene expression during skeletal muscle atrophy and programmed cell death"],"prefix":"10.1152","volume":"52","author":[{"given":"Junko","family":"Tsuji","sequence":"first","affiliation":[{"name":"Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, Massachusetts"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Travis","family":"Thomson","sequence":"additional","affiliation":[{"name":"Department of Neurobiology, University of Massachusetts Medical School, Worcester, Massachusetts"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Elizabeth","family":"Chan","sequence":"additional","affiliation":[{"name":"Department of Biology, Morrill Science Center, University of Massachusetts, Amherst, Massachusetts"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Christine K.","family":"Brown","sequence":"additional","affiliation":[{"name":"Department of Biology, Morrill Science Center, University of Massachusetts, Amherst, Massachusetts"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Julia","family":"Oppenheimer","sequence":"additional","affiliation":[{"name":"Department of Biology, Barnard College, New York, New York"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Carol","family":"Bigelow","sequence":"additional","affiliation":[{"name":"Department of Biostatistics and Epidemiology, University of Massachusetts, Amherst, Massachusetts"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Xianjun","family":"Dong","sequence":"additional","affiliation":[{"name":"Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, Massachusetts"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"William E.","family":"Theurkauf","sequence":"additional","affiliation":[{"name":"Program in Molecular Medicine, University of Massachusetts Medical School, Worcester, Massachusetts"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Zhiping","family":"Weng","sequence":"additional","affiliation":[{"name":"Program in Bioinformatics and Integrative Biology, University of Massachusetts Medical School, Worcester, Massachusetts"}],"role":[{"role":"author","vocabulary":"crossref"}]},{"given":"Lawrence M.","family":"Schwartz","sequence":"additional","affiliation":[{"name":"Department of Biology, Morrill Science Center, University of Massachusetts, Amherst, Massachusetts"}],"role":[{"role":"author","vocabulary":"crossref"}]}],"member":"24","reference":[{"doi-asserted-by":"publisher","key":"B1","DOI":"10.1016\/j.mod.2005.08.004"},{"doi-asserted-by":"publisher","key":"B2","DOI":"10.1016\/S0022-2836(05)80360-2"},{"doi-asserted-by":"publisher","key":"B3","DOI":"10.1016\/j.gde.2011.04.003"},{"doi-asserted-by":"publisher","key":"B4","DOI":"10.1016\/j.cub.2004.12.037"},{"doi-asserted-by":"publisher","key":"B5","DOI":"10.1016\/S0092-8674(04)00045-5"},{"doi-asserted-by":"publisher","key":"B6","DOI":"10.1016\/j.ydbio.2018.12.001"},{"doi-asserted-by":"publisher","key":"B7","DOI":"10.2225\/vol14-issue2-fulltext-9"},{"doi-asserted-by":"publisher","key":"B8","DOI":"10.1152\/physiolgenomics.00247.2010"},{"doi-asserted-by":"publisher","key":"B9","DOI":"10.1126\/science.1065874"},{"doi-asserted-by":"publisher","key":"B10","DOI":"10.1007\/s10142-010-0162-7"},{"doi-asserted-by":"publisher","key":"B11","DOI":"10.1038\/nrg3355"},{"doi-asserted-by":"publisher","key":"B12","DOI":"10.1002\/jcp.24604"},{"doi-asserted-by":"publisher","key":"B13","DOI":"10.1186\/s13054-016-1314-5"},{"doi-asserted-by":"publisher","key":"B14","DOI":"10.1016\/S0896-6273(01)00515-3"},{"volume-title":"Genomic Regulatory Systems: Development and Evolution","year":"2001","author":"Davidson EH","key":"B15"},{"doi-asserted-by":"publisher","key":"B16","DOI":"10.1038\/ncomms3916"},{"doi-asserted-by":"publisher","key":"B17","DOI":"10.3389\/fcell.2020.00409"},{"doi-asserted-by":"publisher","key":"B18","DOI":"10.1152\/physiolgenomics.00129.2011"},{"doi-asserted-by":"publisher","key":"B19","DOI":"10.1038\/ncb984"},{"key":"B20","first-page":"525","volume":"79","author":"Dudley GA","year":"1992","journal-title":"J Fla Med Assoc"},{"doi-asserted-by":"publisher","key":"B21","DOI":"10.1038\/s41597-019-0185-4"},{"key":"B22","doi-asserted-by":"crossref","first-page":"419","DOI":"10.1016\/B978-0-12-384747-8.10012-1","volume-title":"Insect Molecular Biology and Biochemistry","author":"Fahrbach SE","year":"2012"},{"doi-asserted-by":"publisher","key":"B23","DOI":"10.1016\/j.jamda.2011.01.003"},{"doi-asserted-by":"publisher","key":"B24","DOI":"10.1093\/nar\/gkr688"},{"doi-asserted-by":"publisher","key":"B25","DOI":"10.3389\/fphys.2018.00235"},{"doi-asserted-by":"publisher","key":"B26","DOI":"10.1073\/pnas.251541198"},{"doi-asserted-by":"publisher","key":"B27","DOI":"10.1093\/bioinformatics\/btr064"},{"doi-asserted-by":"publisher","key":"B28","DOI":"10.1242\/jcs.217943"},{"doi-asserted-by":"publisher","key":"B29","DOI":"10.1074\/jbc.271.45.28521"},{"doi-asserted-by":"publisher","key":"B30","DOI":"10.1038\/nrm3838"},{"doi-asserted-by":"publisher","key":"B31","DOI":"10.1074\/jbc.270.16.9407"},{"doi-asserted-by":"publisher","key":"B32","DOI":"10.1073\/pnas.1121060109"},{"doi-asserted-by":"publisher","key":"B33","DOI":"10.1016\/j.jmva.2007.07.002"},{"doi-asserted-by":"publisher","key":"B34","DOI":"10.1016\/j.csda.2006.11.025"},{"doi-asserted-by":"publisher","key":"B35","DOI":"10.1016\/j.tcb.2015.07.011"},{"doi-asserted-by":"publisher","key":"B36","DOI":"10.7150\/ijbs.5.351"},{"doi-asserted-by":"publisher","key":"B37","DOI":"10.1006\/dbio.1995.1159"},{"doi-asserted-by":"publisher","key":"B38","DOI":"10.1006\/cbir.2000.0669"},{"doi-asserted-by":"publisher","key":"B39","DOI":"10.1016\/j.ibmb.2016.07.005"},{"doi-asserted-by":"publisher","key":"B40","DOI":"10.1186\/gb-2013-14-4-r36"},{"doi-asserted-by":"publisher","key":"B41","DOI":"10.1093\/nar\/gkt1181"},{"key":"B42","first-page":"7","volume-title":"Handbook of Zoology","author":"Kristensen NP","year":"1999"},{"doi-asserted-by":"publisher","key":"B43","DOI":"10.1002\/(SICI)1097-4695(199912)41:4\u02c2482:AID-NEU4\u02c33.0.CO;2-X"},{"doi-asserted-by":"publisher","key":"B44","DOI":"10.1093\/nar\/gkw550"},{"doi-asserted-by":"publisher","key":"B45","DOI":"10.1186\/gb-2009-10-3-r25"},{"doi-asserted-by":"publisher","key":"B46","DOI":"10.1096\/fj.03-0610com"},{"doi-asserted-by":"publisher","key":"B47","DOI":"10.1172\/JCI7300"},{"doi-asserted-by":"publisher","key":"B48","DOI":"10.1126\/science.1065329"},{"doi-asserted-by":"publisher","key":"B49","DOI":"10.1016\/j.cell.2004.12.035"},{"doi-asserted-by":"publisher","key":"B50","DOI":"10.1038\/276565a0"},{"doi-asserted-by":"publisher","key":"B51","DOI":"10.1038\/srep28619"},{"doi-asserted-by":"publisher","key":"B52","DOI":"10.1371\/journal.pone.0142680"},{"doi-asserted-by":"publisher","key":"B53","DOI":"10.1038\/cr.2016.86"},{"doi-asserted-by":"publisher","key":"B54","DOI":"10.1186\/s13395-019-0194-1"},{"doi-asserted-by":"publisher","key":"B55","DOI":"10.1016\/0022-1910(65)90099-5"},{"doi-asserted-by":"publisher","key":"B56","DOI":"10.1186\/s13059-014-0550-8"},{"doi-asserted-by":"publisher","key":"B57","DOI":"10.1002\/jcp.22871"},{"doi-asserted-by":"publisher","key":"B58","DOI":"10.1016\/j.cmet.2007.11.001"},{"doi-asserted-by":"publisher","key":"B59","DOI":"10.4161\/rna.21879"},{"doi-asserted-by":"publisher","key":"B60","DOI":"10.1016\/j.bone.2017.09.008"},{"doi-asserted-by":"publisher","key":"B61","DOI":"10.1093\/nar\/gkt997"},{"doi-asserted-by":"publisher","key":"B62","DOI":"10.1093\/nar\/gkj143"},{"doi-asserted-by":"publisher","key":"B63","DOI":"10.1016\/bs.ircmb.2017.03.005"},{"doi-asserted-by":"publisher","key":"B64","DOI":"10.4161\/15592294.2014.971580"},{"doi-asserted-by":"publisher","key":"B65","DOI":"10.1074\/jbc.M301032200"},{"doi-asserted-by":"publisher","key":"B66","DOI":"10.1371\/journal.pone.0143818"},{"doi-asserted-by":"publisher","key":"B67","DOI":"10.1038\/ncomms7670"},{"doi-asserted-by":"publisher","key":"B68","DOI":"10.1038\/s41467-018-06057-9"},{"doi-asserted-by":"publisher","key":"B69","DOI":"10.1387\/ijdb.150055sk"},{"doi-asserted-by":"publisher","key":"B70","DOI":"10.1038\/s41576-018-0073-3"},{"doi-asserted-by":"publisher","key":"B71","DOI":"10.1101\/gad.245621.114"},{"doi-asserted-by":"publisher","key":"B72","DOI":"10.1083\/jcb.201212142"},{"doi-asserted-by":"publisher","key":"B73","DOI":"10.1016\/S0092-8674(04)00400-3"},{"doi-asserted-by":"publisher","key":"B74","DOI":"10.1111\/febs.12253"},{"doi-asserted-by":"publisher","key":"B75","DOI":"10.1371\/journal.pbio.1000013"},{"doi-asserted-by":"publisher","key":"B76","DOI":"10.3389\/fphys.2018.01887"},{"doi-asserted-by":"publisher","key":"B77","DOI":"10.1152\/ajpcell.00176.2016"},{"doi-asserted-by":"publisher","key":"B78","DOI":"10.1006\/dbio.1993.1202"},{"doi-asserted-by":"publisher","key":"B79","DOI":"10.1073\/pnas.87.17.6594"},{"doi-asserted-by":"publisher","key":"B80","DOI":"10.1016\/0896-6273(90)90080-Y"},{"doi-asserted-by":"publisher","key":"B81","DOI":"10.1152\/ajpcell.01275.2000"},{"doi-asserted-by":"publisher","key":"B82","DOI":"10.1073\/pnas.90.3.980"},{"doi-asserted-by":"publisher","key":"B83","DOI":"10.1073\/pnas.81.21.6718"},{"doi-asserted-by":"publisher","key":"B84","DOI":"10.1016\/0012-1606(83)90257-9"},{"doi-asserted-by":"publisher","key":"B85","DOI":"10.1126\/science.6278594"},{"doi-asserted-by":"publisher","key":"B86","DOI":"10.1038\/sdata.2018.213"},{"doi-asserted-by":"publisher","key":"B87","DOI":"10.1038\/emboj.2010.37"},{"doi-asserted-by":"publisher","key":"B88","DOI":"10.1101\/gr.1239303"},{"doi-asserted-by":"publisher","key":"B89","DOI":"10.1002\/ijc.26015"},{"doi-asserted-by":"publisher","key":"B90","DOI":"10.3389\/fcell.2020.00622"},{"doi-asserted-by":"publisher","key":"B91","DOI":"10.1016\/S0022-5347(05)67106-6"},{"doi-asserted-by":"publisher","key":"B92","DOI":"10.1016\/j.yjmcc.2008.04.014"},{"doi-asserted-by":"publisher","key":"B93","DOI":"10.1002\/neu.480260110"},{"doi-asserted-by":"publisher","key":"B94","DOI":"10.1096\/fj.14-254292"},{"doi-asserted-by":"publisher","key":"B95","DOI":"10.1093\/nar\/gkq973"},{"doi-asserted-by":"publisher","key":"B96","DOI":"10.1093\/oxfordjournals.jbchem.a022542"},{"doi-asserted-by":"publisher","key":"B97","DOI":"10.1172\/JCI40373"},{"doi-asserted-by":"publisher","key":"B98","DOI":"10.1016\/S1534-5807(01)00060-0"},{"doi-asserted-by":"publisher","key":"B99","DOI":"10.1007\/978-94-017-7417-8_4"},{"doi-asserted-by":"publisher","key":"B100","DOI":"10.1038\/nbt.1621"},{"doi-asserted-by":"publisher","key":"B101","DOI":"10.1016\/j.biochi.2009.10.003"},{"doi-asserted-by":"publisher","key":"B102","DOI":"10.1126\/science.167.3925.1624"},{"doi-asserted-by":"publisher","key":"B103","DOI":"10.1093\/nar\/gku989"},{"doi-asserted-by":"publisher","key":"B104","DOI":"10.1016\/j.gene.2007.01.033"},{"doi-asserted-by":"publisher","key":"B105","DOI":"10.1038\/nrm3941"},{"doi-asserted-by":"publisher","key":"B106","DOI":"10.1016\/j.ydbio.2007.05.001"},{"doi-asserted-by":"publisher","key":"B107","DOI":"10.3390\/ijms19020405"},{"doi-asserted-by":"publisher","key":"B108","DOI":"10.1016\/j.ibmb.2014.08.006"},{"doi-asserted-by":"publisher","key":"B109","DOI":"10.1016\/j.ibmb.2014.01.008"},{"doi-asserted-by":"publisher","key":"B110","DOI":"10.1016\/j.ibmb.2012.01.006"},{"doi-asserted-by":"publisher","key":"B111","DOI":"10.1093\/nar\/gkq858"},{"doi-asserted-by":"publisher","key":"B112","DOI":"10.1016\/j.ydbio.2013.08.029"}],"container-title":["Physiological Genomics"],"original-title":[],"language":"en","link":[{"URL":"https:\/\/journals.physiology.org\/doi\/pdf\/10.1152\/physiolgenomics.00047.2020","content-type":"unspecified","content-version":"vor","intended-application":"similarity-checking"}],"deposited":{"date-parts":[[2020,10,12]],"date-time":"2020-10-12T17:44:43Z","timestamp":1602524683000},"score":1,"resource":{"primary":{"URL":"https:\/\/journals.physiology.org\/doi\/10.1152\/physiolgenomics.00047.2020"}},"subtitle":[],"short-title":[],"issued":{"date-parts":[[2020,10,1]]},"references-count":112,"journal-issue":{"issue":"10","published-print":{"date-parts":[[2020,10,1]]}},"alternative-id":["10.1152\/physiolgenomics.00047.2020"],"URL":"https:\/\/doi.org\/10.1152\/physiolgenomics.00047.2020","relation":{},"ISSN":["1094-8341","1531-2267"],"issn-type":[{"type":"print","value":"1094-8341"},{"type":"electronic","value":"1531-2267"}],"subject":[],"published":{"date-parts":[[2020,10,1]]}}}