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Large-scale long terminal repeat insertions produced a significant set of novel transcripts in cotton

Science China(Life Sciences) 2023年第8期66卷 1711-1724页

作者： Yan Yang Xingpeng Wen Zhiguo Wu Kun Wang Yuxian Zhu Institute for Advanced Studies Wuhan UniversityWuhan 430072China College of Life Sciences Wuhan UniversityWuhan 430072China Hubei Hongshan Laboratory Wuhan 430072China TaiKang Center for Life and Medical Sciences RNA InstituteRemin HospitalWuhan UniversityWuhan 430072China

Genomic analysis has revealed that the 1,637-Mb Gossypium arboreum genome contains approximately 81%transposable elements(TEs),while only 57%of the 735-Mb *** genome is occupied by *** this study,we investigated whether there were unknown transcripts associated with TE or TE fragments and,if so,how these new transcripts were evolved and *** sequence depths increased from 4 to 100 G,a total of 10,284 novel intergenic transcripts(intergenic genes)were *** average,approximately 84%of these intergenic transcripts possibly overlapped with the long terminal repeat(LTR)insertions in the otherwise untranscribed intergenic regions and were expressed at relatively low *** of these intergenic transcripts possessed no transcription activation markers,while the majority of the regular genic genes possessed at least one such *** without transcription activation markers formed their+1 and-1 nucleosomes more closely(only(117±1.4)bp apart),while twice as big spaces(approximately(403.5±46.0)bp apart)were detected for genes with the activation *** analysis of 183 previously assembled genomes across three different kingdoms demonstrated systematically that intergenic transcript numbers in a given genome correlated positively with its LTR *** analysis revealed that genic genes originated during one of the whole-genome duplication events around 137.7million years ago(MYA)for all eudicot genomes or 13.7 MYA for the Gossypium family,respectively,while the intergenic transcripts evolved around 1.6 MYA,resultant of the last LTR *** characterization of these low-transcribed intergenic transcripts can facilitate our understanding of the potential biological roles played by LTRs during speciation and diversifications.

关键词： RNA-seq intergenic transcripts long terminal repeat epigenetic modification nucleosomes

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Intracellular CMTM2 negatively regulates human immunodeficiency virus type-1 transcription through targeting the transcription factors AP-1 and CREB

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Chinese Medical Journal 2010年第17期123卷 2440-2445页

作者： SONG Hong-shuo SHI Shuang LU Xiao-zhi GAO Feng YAN Ling WANG Ying ZHUANG Hui Department of Microbiology Peking University Health Science Center Beijing 100191 China Department of Immunology Peking University Health Science Center Beijing 100191 China Duke Human Vaccine Institute Duke University Medical Center Durham NC 27710 USA

Background The CKLF-like MARVEL transmembrane domain-containing family （CMTM） is a novel family of proteins linking chemokines and TM4SF. Different members exhibit diverse biological functions. In this study, the effect of intracellular CMTM2 on regulating human immunodeficiency virus type-1 （HIV-1） transcription was *** The effects of CMTM2 on regulating full-length HIV-1 provirus and the HIV-1 long terminal repeat （LTR）-directed transcription were assessed by luciferase assay. Transcription factor assays, using the luciferase reporter plasmids of AP-1, CRE, and NF-κB were conducted to explore the signaling pathway（s） that may be regulated by CMTM2. The potential relationship between CMTM2 and the transcription factor AP-1 was further analyzed by Western blotting analyses to investigate the effect of CMTM2 on PMA-induced ERK1/2 *** The results from the current study revealed that CMTM2 acts as a negative regulator of HIV-1 ***2 exerted a suppressive action on both full-length HIV-1 provirus and HIV-1 LTR-directed *** factor assays showed that CMTM2 selectively inhibited basal AP-1 and CREB activity. Co-expression of HIV-1 Tat, a potent AP-1 and CREB activator, can not reverse CMTM2-mediated AP-1 and CREB inhibition, suggesting a potent and specific effect of CMTM2 on negatively regulating these two signaling *** Intracellular CMTM2 can negatively regulate HIV-1 transcription, at least in part, by targeting the AP-1 and CREB pathways. Exploring the mechanisms further may lead to new ways to control HIV-1 replication.

关键词： CMTM2 HIV-1 long terminal repeat regulation

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