摘要
【目的】明确木薯不同性型花的转录组差异,为深入研究木薯多开雌花和两性花及协调木薯性别比例提供理论参考。【方法】以木薯雄蕾、雌蕾和两性蕾为供试材料,采用Illumina HiSeqTM4000测序平台对其进行转录组测序,通过生物信息学对转录本进行比较分析,预测和筛选出木薯性别决定相关基因。【结果】通过转录组分析获得高质量序列(Clean reads)64189053个,高质量碱基19.29 Gb。3种花蕾的GC含量均在43.00%左右、Q30均在95.00%左右。木薯雄蕾、雌蕾和两性蕾的Clean reads总数分别为42642272、42172402和43563432条,其中,参考基因组和单端的比对率均在77.00%左右、多位置比对率均小于0.80%,正、负链比对率均在39.00%左右;约有90.00%的序列定位于外显子,仅有5.00%的序列定位于内含子或基因间区。在雄蕾—雌蕾(前者是对照,后者是处理,下同)、雄蕾—两性蕾和雌蕾—两性蕾3个对比组中分别筛选到3629、2499和2492个差异表达基因(DEGs),注释到GO功能数据库中的DEGs分别为2544、1749和1807个,其中,雄蕾—雌蕾对比组的上调表达基因和下调表达基因数量均最多。以富集于生物学过程(主要为代谢过程和细胞过程)的DEGs最多,其次是分子功能(主要为结合和催化)和细胞组分(主要为细胞和细胞部分);无论是注释到GO功能数据库的DEGs,还是注释到生物学过程、细胞部分和分子功能等主要次级分类中的DEGs,均以雄蕾—雌蕾对比组最多。3个对比组中均以参与激素信号传导的DEGs最多;且又以富集于一般功能预测的DEGs最多,其次是富集于转录的DEGs,富集于复制、重组和修复及信号传导机制的DEGs也较多,但雄蕾—雌蕾对比组大部分GOG功能类别的DEGs明显多于雄蕾—两性蕾和雌蕾—两性蕾对比组,而雄蕾—两性蕾与雌蕾—两性蕾对比组间差异不明显。3个对比组的DEGs富集于50条KEGG信号通路,其中以富集于植物�
【Objective】Transcriptome difference of cassava flowers with different sex-types were studied to provide theoretical basis for cassava developing more female flowers and bisexual flowers,and further for controlling the proportion of cassava flowers sex.【Method】The transcriptome of male buds,female buds and bisexual buds from cassava were sequenced with Illumina HiSeqTM 4000 platform.Comparative analysis of transcription through bioinformatics was performed to predict and screen for the genes involved in cassava sex determination.【Result】The results showed that a total of 64189053 clean reads and 19.20 Gb clean bases were obtained,the GC content of the three buds were about 43.00%and the Q30 were about 95.00%.For male buds,female buds and bisexual buds,total clean reads were 42642272,42172402 and 43563432,respectively.The proportion of reference genome,unique mapped reads,multiple mapped reads,reads Map to“+”,and reads Map to“-”were 77.00%,77.00%,less than 0.80%,39.00%and 39.00%,respectively.About 90.00%of the reads were identified in exon,and about 5.00%were identified in intron or gene interval.Differential expression analysis showed that 3629,2499 and 2492 differentially expressed genes(DEGs)were successively found in male buds-female buds(M-F),male buds-bisexual buds(M-B)and female buds-bisexual buds(F-B)(the former one was control,the latter was treatment),in which,2544,1749 and 1807 DEGs were annotated to GO function database,respectively.The down-regulated and up-regulated genes were the most in the M-F group among the three comparisons.The DEGs were mainly involved in biological processes(mainly metabolic process and cell process),and secondly involved in molecular functions(mainly binding and catalysis)and cellular component(cell and cell part).The quantities of DEGs annotated to GO database,or annotated to the biological process,cellular component or molecular function in the M-F were higher than those in the other comparisons.For all comparisons,the quantities of DEGs involved in horm
作者
韦丽君
俞奔驰
宋恩亮
郑华
卢赛清
付海天
WEI Li-jun;YU Ben-chi;SONG En-liang;ZHENG Hua;LU Sai-qing;FU Hai-tian(Guangxi Subtropical Crops Research Institute,Nanning 530001,China)
出处
《南方农业学报》
CAS
CSCD
北大核心
2020年第8期1785-1796,共12页
Journal of Southern Agriculture
基金
广西自然科学基金项目(2017GXNSFBA198172)
广西科技计划项目(桂科AB1850037)
国家现代农业产业技术体系建设专项(CARS-11)。
关键词
木薯
性别决定
基因挖掘
差异表达基因(DEGs)
激素信号传导
转录组测序
cassava
sex determination
gene mining
differentially expressed genes(DEGs)
hormone signaling transduction
transcriptome sequencing
