禾荔特晚熟焦核突变体GLL-1全基因组变异分析  被引量:2

Genome-wide variation analysis of the aborted-seeded and late-maturing mutant GLL-1 from Heli

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作  者:丁峰 李浩然 王金英 彭宏祥[2] 何新华[3] 黄小雄 李平 钟敏芝 覃燕 张树伟[1,2] DING Feng;LI Hao-ran;WANG Jin-ying;PENG Hong-xiang;HE Xin-hua;HUANG Xiao-xiong;LI Ping;ZHONG Min-zhi;QIN Yan;ZHANG Shu-wei(Guangxi Academy of Agricultural Sciences/Guangxi Crop Genetic Improvement and Biotechnology Laboratory,Nanning 530007,China;Horticultural Research Institute,Guangxi Academy of Agricultural Sciences,Nanning 530007,China;College of Agriculture/State Key Laboratory for Conservation and Utilization of Subtropical Agro-bioresources,Guangxi University,Nanning 530004,China;Agricultural Technology Extension Station of Madong,Guiping,Guangxi 537200,China)

机构地区:[1]广西农业科学院/广西作物遗传改良生物技术重点开放实验室,南宁530007 [2]广西农业科学院园艺研究所,南宁530007 [3]广西大学农学院/亚热带农业生物资源保护与利用国家重点实验室,南宁530004 [4]桂平麻垌镇农业技术推广站,广西桂平537200

出  处:《南方农业学报》2021年第7期1780-1789,共10页Journal of Southern Agriculture

基  金:国家自然科学基金项目(32060659);广西自然科学基金项目(2017GXNSFAA198350,2018GXNSFAA050089,2018GXNSFAA294034)。

摘  要:【目的】探究禾荔特晚熟焦核突变体GLL-1的全基因组变异情况,为调控荔枝果实成熟期、解析焦核发生分子机制及选育焦核品种提供理论支持。【方法】通过荔枝种质资源普查发现1个禾荔特晚熟焦核突变体GLL-1,对禾荔和GLL-1开展全基因组重测序(测序深度50×),对比分析GLL-1全基因组变异情况。【结果】与禾荔相比,GLL-1果实明显较大,品质优良,特晚熟,种子变为焦核,可食率明显提高。从GLL-1基因组获得320858674个高质量的Clean reads,定位到荔枝参考基因组的高质量Clean reads数占比为96.07%,正确识别率大于Q20的碱基占比为96.48%,正确识别率大于Q30的碱基占比为91.38%,基因组GC含量为35.28%,覆盖度(大于1×的碱基占比)为97.62%。检测到9306084个单核苷酸多态性(SNP)位点和759887个小片段插入和缺失(Indel)位点,共导致12621个基因发生变异,其中发生非同义SNP突变的基因8451个,发生Indel的基因4170个。许多与花色素苷生物合成相关的MYB、bHLH、WD40转录因子家族基因及参与ABA信号转导的重要家族基因(bZIP、WRKY、MAPK及PPR)均发生突变。【结论】MYB、bHLH、WD40、bZIP、WRKY、MAPK及PPR等家族基因的突变可能是导致GLL-1果实特晚熟及焦核发生的一个主要原因,推测其在调控荔枝果实发育和焦核发生中发挥关键作用。【Objective】The present study aimed to study the genome-wide variation situation of Lihe super late-matu ring aborted-seeded mutant GLL-1,and provide theoretical basis for regulating the ripening period of litchi fruit,analy-zing Molecular mechanisms of aborted-seeds,and breeding of aborted-seeded litchi varieties.【Method】Through the sur-vey of litchi germplasm resources,Lihe super late-maturing aborted-seeded mutant GLL-1 was found,whole-genome re-sequencing of cultivars Heli and GLL-1 with 50×depth was conducted,and GLL-1 whole-genome variation situations were compared.【Result】Compared with Heli,the GLL-1 fruit was obviously larger,with good quality,especially late ripening,seeds became into aborted-seeds,the edible rate was greatly improved.Obtained a total of 320858674 high qua lity clean reads from GLL-1 genome,of which 96.07%were located in the reference genome of litchi,and the percentage of bases with the correct recognition rate greater than Q20 was 96.48%.The percentage of bases with the correct recogni-tion rate greater than Q30 was 91.38%;the genomic GC content was 35.28%,97.62%of bases with a depth of more than 1×were covered.The results revealed 9306084 single nucleotide polymorphisms(SNPs)and 759887 insertion and dele-tion of small fragments(Indels),which conferred 12621 mutant genes.A total of 8451 non-synonymous SNP mutations and 4170 Indel genes were identified.It was worth noting that many anthocyanin biosynthesis associated transcription fac-tor family genes including MYB,bHLH and WD40 and important family genes involving in ABA signal transduction in-cluding bZIP,WRKY,MAPK and PPR were mutated.【Conclusion】Mutations in family genes,including MYB,bHLH,WD40,bZIP,WRKY,MAPK and PPR,may be a major cause of the super late ripening and the aborted-seeded traits of GLL-1 fruit,which play a key role in regulating litchi fruit development and aborted-seeded traits.

关 键 词:荔枝 焦核突变体 全基因组重测序 变异分析 SNP INDEL 

分 类 号:S667.103.6[农业科学—果树学]

 

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