基于靶向测序技术的菜豆SNP液相芯片开发及验证

doi:10.16420/j.issn.0513-353x.2023-0301

摘要/Abstract

摘要：

根据公开发表的菜豆基因组和重测序数据，利用生物信息学的方法筛选出61 950个高质量SNP位点，通过对目标位点进行探针设计评估，最终设计开发出分别包含40 352、20 855和10 486个SNP位点的40K、20K和10K液相芯片。利用10K液相芯片，对89份菜豆品种进行靶向测序基因分型检测，结果显示菜豆的平均多态性信息含量值和基因多样性值分别为0.35和0.29。STRUCTURE和聚类分析将89份菜豆划分为2个品种群，该分类结果显示同一地域的菜豆品种遗传背景和果实性状大都较为相似。基于选择信号分析，共鉴定到103个处于强烈选择状态的区域，这些区域中的位点可为后续功能基因研究提供候选。

关键词: 菜豆, 单核苷酸多态性, 靶向测序, 遗传多样性

Abstract:

A total of 61 950 high-quality SNP loci were identified based on published common bean genome and resequencing data using bioinformatic methods. By evaluating the target loci for probe design，40K，20K and 10K liquid chips containing 40 352，20 855 and 10 486 SNP loci were finally designed and developed，respectively. Using the 10K liquid chip，89 common bean varieties were genotyped by targeted sequencing. The results showed that the mean polymorphic information content and genetic diversity values of 89 common bean varieties were 0.35 and 0.29，respectively. The 89 common bean varieties were classified into two genetic subgroups by STRUCTURE and cluster analysis，which showed that the genetic background and fruit traits of common bean varieties in the same region were mostly similar. Based on selection signal analysis，a total of 103 regions subject to strong selective pressure were identified，and the loci in these regions will provide candidates for subsequent functional gene studies.

Key words: common bean, single nucleotide polymorphism（SNP）, genotyping by target sequencing （GBTS）, genetic diversity

袁娜, 徐勤圆, 徐照龙, 周玲, 刘晓庆, 陈新, 杜建厂. 基于靶向测序技术的菜豆SNP液相芯片开发及验证[J]. 园艺学报, 2024, 51(5): 1017-1032.

YUAN Na, XU Qinyuan, XU Zhaolong, ZHOU Ling, LIU Xiaoqing, CHEN Xin, DU Jianchang. The Development and Verification of SNP Lquid Chips for Common Bean Based on Targeted Sequencing Technology[J]. Acta Horticulturae Sinica, 2024, 51(5): 1017-1032.

图/表 9

参考文献 44

[1]	Bitocchi E, Rau D, Bellucci E, Rodriguez M, Murgia M L, Gioia T, Santo D, Nanni L, Attene G, Papa R. 2017. Beans(Phaseolus ssp.)as a model for understanding crop evolution. Frontiers in Plant Science, 8:722. doi: 10.3389/fpls.2017.00722 pmid: 28533789
[2]	Botstein D, White R L, Skolnick M, Davis R W. 1980. Construction of a genetic linkage map in man using restriction fragment length polymorphisms. The American Journal of Human Genetics, 32 (3):314-331.
[3]	Carvalho M S, de Oliveira Moulin Carias C M, Silva M A, da Silva Ferreira M F, de Souza T L P O, Posse S C P, Ferreira A. 2020. Genetic diversity and structure of landrace accessions,elite lineages and cultivars of common bean estimated with SSR and SNP markers. Molecular Biology Reports, 47:6705-6715.
[4]	Du H, Yang J, Chen B, Zhang X, Zhang J, Yang K, Geng S, Wen C. 2019. Target sequencing reveals genetic diversity,population structure,core-SNP markers,and fruit shape-associated loci in pepper varieties. BMC Plant Biology, 19:578.
[5]	Eltaher S, Sallam A, Belamkar V, Emara H A, Nower A A, Salem K F, Poland J, Baenziger P S. 2018. Genetic diversity and population structure of F3: 6 Nebraska winter wheat genotypes using genotyping-by-sequencing. Frontiers in Genetics, 9:76.
[6]	Evanno G, Regnaut S, Goudet J. 2005. Detecting the number of clusters of individuals using the software STRUCTURE:a simulation study. Molecular Ecology, 14 (8):2611-2620. doi: 10.1111/j.1365-294X.2005.02553.x pmid: 15969739
[7]	Guo Yong-tian. 2014. The economic analysis of edible bean industry in China[Ph. D. Dissertation]. Wuhan: Huazhong Agricultural University. (in Chinese)
	郭永田. 2014. 中国食用豆产业的经济分析[博士论文]. 武汉: 华中农业大学.
[8]	Guo Z, Wang H, Tao J, Ren Y, Xu C, Wu K, Zou C, Zhang J, Xu Y. 2019. Development of multiple SNP marker panels affordable to breeders through genotyping by target sequencing(GBTS)in maize. Molecular Breeding, 39:37-48.
[9]	Guo Z, Yang Q, Huang F, Zheng H, Sang Z, Xu Y, Zhang C, Wu K, Tao J, Prasanna B M, Olsen M S, Wang Y, Zhang J, Xu Y. 2021. Development of high-resolution multiple-SNP arrays for genetic analyses and molecular breeding through genotyping by target sequencing and liquid chip. Plant Communication, 2 (6):100230.
[10]	Kole C. 2011. Wild crop relatives. Genomic and breeding resources. legume crops and forages. New York: Springer.
[11]	Kumar S, Stecher G, Tamura K. 2016. MEGA7:molecular evolutionary genetics analysis version 7.0 for bigger datasets. Molecular Biology Evolution, 33 (7):1870-1874.
[12]	Li S N, Lin D X, Zhang Y W, Deng M, Chen Y X, Lv B, Li B S, Lei Y, Wang Y P, Zhao L, Liang Y T, Liu J X, Chen K L, Liu Z Y, Xiao J, Qiu J L, Gao C X. 2022. Genome-edited powdery mildew resistance in wheat without growth penalties. Nature, 602 (7897):455-460.
[13]	Lin Y, Jiang X J, Hu H Y, Zhou K Y, Wang Q, Yu S F, Yang X L, Wang Z Q, Wu F K, Liu S H, Li C X, Deng M, Ma J, Chen G D, Wei Y M, Zheng Y L, Liu Y X. 2021. QTL mapping for grain number per spikelet in wheat using a high-density genetic map. The Crop Journal, 9 (5):1108-1114.
[14]	Liu Chenglang, Feng Di, Cao Zonghong, Yan Suyun, Zhang Yongqing, Xu Xiangzeng, Gao Shide, Ye Junli, Chai Lijun, Xie Zongzhou, Deng Xiuxin. 2023. Comparative analysis of genetic background of‘Dongshi Zaoyou’,‘Shatianyou’and‘Shuijingyou’pummelos. Acta Horticulturae Sinica, 50 (11):2337-2349.  (in Chinese) doi: 10.16420/j.issn.0513-353x.2022-0981
	刘承浪, 冯迪, 曹宗洪, 闫素云, 张永青, 徐祥增, 高世德, 叶俊丽, 柴利军, 谢宗周, 邓秀新. 2023. 东试早柚与沙田柚和水晶柚遗传背景比较. 园艺学报, 50 (11):2337-2349. doi: 10.16420/j.issn.0513-353x.2022-0981
[15]	Liu Da-liang. 2020. Identification of LTR retrotransposons elements with env structure in nine legume species and development of RBIP molecular markers for Phaseolus vulgaris[Ph. D. Dissertation]. Nanjing: Nanjing Agriculture University.  (in Chinese)
	刘大亮. 2020. 9种豆科植物含env结构的LTR反转座元件的注释及菜豆RBIP分子标记开发[博士论文]. 南京: 南京农业大学.
[16]	Liu Y, Liu S, Zhang Z, Ni L, Chen X, Ge Y, Zhou G, Tian Z. 2022. GenoBaits Soy40K:a highly flexible and low-cost SNP array for soybean studies. Science China Life Sciences, 65 (9):1898-1901.
[17]	Luan Fei-shi. 2000. Study on the genetic diversity of common bean germplasm resources[Ph. D. Dissertation]. Harbin: Northeast Agricultural University. (in Chinese)
	栾非时. 2000. 菜豆种质资源遗传多样性的研究[博士论文]. 哈尔滨: 东北农业大学.
[18]	Luo Z, Brock J, Dyer J M, Kutchan T, Schachtman D, Augustin M, Ge Y, Fahlgren N, Abdel-Haleem H. 2019. Genetic diversity and population structure of a Camelina sativa spring panel. Frontiers in Plant Science, 10:184.
[19]	Mahiya-Farooq, Padder B A, Bhat N N, Shah M, Shikari A B, Awale H E, Kelly J D. 2019. Temporal expression of candidate genes at the Co-1 locus and their interaction with other defense related genes in common bean. Physiological and Molecular Plant Pathology, 108:101424.
[20]	Mo Z, Zhu J, Wei J, Zhou J, Xu Q, Tang H, Mu Y, Deng M, Jiang Q, Liu Y, Chen G, Wang J, Qi P, Li W, Wei Y, Zheng Y, Lan X, Ma J. 2021. The 55K SNP-based exploration of QTLs for spikelet number per spike in a tetraploid wheat(Triticum turgidum L.)population:Chinese landrace“Ailanmai”× wild emmer. Frontiers in Plant Science, 12:732837.
[21]	Nagy E D, Guo Y, Tang S, Bowers J E, Okashah R A, Taylor C A, Zhang D, Khanal S, Heesacker A F, Khalilian N, Farmer A D, Carrasquilla-Garcia N, Penmetsa R V, Cook D, Stalker H T, Nielsen N, Ozias-Akins P, Knapp S J. 2012. A high-density genetic map of Arachis duranensis,a diploid ancestor of cultivated peanut. BMC Genomics, 13:469.
[22]	Nkhata W, Shimelis H, Melis R, Chirwa R, Mzengeza T, Mathew I, Shayanowako A. 2020. Population structure and genetic diversity analyses of common bean germplasm collections of East and Southern Africa using morphological traits and high-density SNP markers. PLoS ONE, 15 (12):e0243238.
[23]	Peng Li-juan, Mou Ke-huan, Zhang Jian-wei, Zhao Zhao, Shan Shi-yao, Xue Xin-ru, Zhu Li, Xu Lin-yu, Li Huan-xiu. 2022. Genetic diversity analysis of Phaseolus vulgaris based on SSR and ISSR markers. Molecular Plant Breeding, 20 (21):7161-7173. (in Chinese)
	彭丽娟, 牟柯澴, 张健伟, 赵兆, 山诗瑶, 薛新如, 朱丽, 许琳玉, 李焕秀. 2022. 基于SSR及ISSR标记的菜豆遗传多样性分析. 分子植物育种, 20 (21):7161-7173.
[24]	Pritchard J K, Stephens M, Donnelly P. 2000. Inference of population structure using multilocus genotype data. Genetics, 155:945-959. doi: 10.1093/genetics/155.2.945 pmid: 10835412
[25]	Purcell S, Neale B, Todd-Brown K, Thomas L, Ferreira M A, Bender D, Maller J, Sklar P, de Bakker P I, Daly M J, Sham P C. 2007. PLINK:a tool set for whole-genome association and population-based linkage analyses. The American Journal of Human Genetics, 81 (3):559-575.
[26]	Rasheed A, Hao Y, Xia X, Khan A, Xu Y, Varshney R K, He Z. 2017. Crop breeding chips and genotyping platforms:progress,challenges,and perspectives. Molecular Plant, 10 (8):1047-1064. doi: S1674-2052(17)30174-0 pmid: 28669791
[27]	Ren Hailong, Xu Donglin, Zhang Jing, Zou Jiwen, Li Guangguang, Zhou Xianyu, Xiao Wanyu, Sun Yijia. 2023. Establishment of SNP fingerprinting and identification of Chinese flowering cabbage varieties based on KASP genotyping. Acta Horticulturae Sinica, 50 (2):307-318. doi: 10.16420/j.issn.0513-353x.2021-1046
	任海龙, 许东林, 张晶, 邹集文, 李光光, 周贤玉, 肖婉钰, 孙艺嘉. 2023. 菜薹KASP-SNP指纹图谱构建及品种鉴定. 园艺学报, 50 (2):307-318. doi: 10.16420/j.issn.0513-353x.2021-1046
[28]	Schmutz J, McClean P E, Mamidi S, Wu G A, Cannon S B, Grimwood J, Jenkins J, Shu S, Song Q, Chavarro C, Torres-Torres M, Geffroy V, Moghaddam S M, Gao D, Abernathy B, Barry K, Blair M, Brick M A, Chovatia M, Gepts P, Goodstein D M, Gonzales M, Hellsten U, Hyten D L, Jia G, Kelly J D, Kudrna D, Lee R, Richard M M, Miklas P N, Osorno J M, Rodrigues J, Thareau V, Urrea C A, Wang M, Yu Y, Zhang M, Wing R A, Cregan P B, Rokhsar D S, Jackson S A. 2014. A reference genome for common bean and genome-wide analysis of dual domestications. Nature Genetics, 46 (7):707-713. doi: 10.1038/ng.3008 pmid: 24908249
[29]	Si Z, Jin S, Li J, Han Z, Li Y, Wu X, Ge Y, Fang L, Zhang T, Hu Y. 2022. The design,validation,and utility of the “ZJU CottonSNP40K”liquid chip through genotyping by target sequencing. Industrial Crops and Products, 188:115629-115629.
[30]	Song Q, Jia G, Hyten D L, Jenkins J, Hwang E Y, Schroeder S G, Osorno J M, Schmutz J, Jackson S A, McClean P E, Cregan P B. 2015. SNP assay development for linkage map construction,anchoring whole-genome sequence,and other genetic and genomic applications in common bean. G3 (Bethesda), 5 (11):2285-2290.
[31]	Vlasova A, Capella-Gutiérrez S, Rendón-Anaya M, Hernández-Oñate M, Minoche A E, Erb I, Câmara F, Prieto-Barja P, Corvelo A, Sanseverino W, Westergaard G, Dohm J C, Pappas G J Jr, Saburido-Alvarez S, Kedra D, Gonzalez I, Cozzuto L, Gómez-Garrido J, Aguilar-Morón M A, Andreu N, Aguilar O M, Garcia-Mas J, Zehnsdorf M, Vázquez M P, Delgado-Salinas A, Delaye L, Lowy E, Mentaberry A, Vianello-Brondani R P, García J L, Alioto T, Sánchez F, Himmelbauer H, Santalla M, Notredame C, Gabaldón T, Herrera-Estrella A, Guigó R. 2016. Genome and transcriptome analysis of the Mesoamerican common bean and the role of gene duplications in establishing tissue and temporal specialization of genes. Genome Biology, 17:32. doi: 10.1186/s13059-016-0883-6 pmid: 26911872
[32]	Wang Fu-qiang, Fan Xiu-cai, Zhang Ying, Liu Chong-huai, Jiang Jian-fu. 2020. Application and prospect of SNP molecular markers in crop variety identification. Journal of Plant Genetic Resources, 21 (5):1308-1320. (in Chinese) doi: 10.13430/j.cnki.jpgr.20200309002
	王富强, 樊秀彩, 张颖, 刘崇怀, 姜建福. 2020. SNP 分子标记在作物品种鉴定中的应用和展望. 植物遗传资源学报, 21 (5):1308-1320. doi: 10.13430/j.cnki.jpgr.20200309002
[33]	Wang Shu-min, Duan Xing-nan, Ding Guo-qing, Wang Xiao-ming. 1999. Collection and evaluation of common bean germplasm resources. China Seed Industry,(3):52-53. (in Chinese)
	王述民, 段醒男, 丁国庆, 王晓鸣. 1999. 普通菜豆种质资源的收集与评价. 作物品种资源,(3):52-53.
[34]	Wang Bao-gen, Dong Jun-yang, Wang Ying, Li Su-juan, Wang Jian, Lu Zhong-fu, Wu Xiao-hua, Li Guo-jing, Wu Xin-yi. 2022. Evaluation and genetic diversity analysis of common bean germplasm in Zhejiang Province,China. Acta Agriculturae Zhejiangensis, 34 (11):2416-2427. (in Chinese)
	汪宝根, 董君暘, 汪颖, 李素娟, 王尖, 鲁忠富, 吴晓花, 李国景, 吴新义. 2022. 浙江省地方菜豆种质资源鉴定与遗传多样性分析. 浙江农业学报, 34 (11):2416-2427. doi: 10.3969/j.issn.1004-1524.2022.11.11
[35]	Wu J, Wang L, Fu J, Chen J, Wei S, Zhang S, Zhang J, Tang Y, Chen M, Zhu J, Lei L, Geng Q, Liu C, Wu L, Li X, Wang X, Wang Q, Wang Z, Xing S, Zhang H, Blair M W, Wang S. 2020. Resequencing of 683 common bean genotypes identifies yield component trait associations across a north-south cline. Nature Genetics, 52 (1):118-125. doi: 10.1038/s41588-019-0546-0 pmid: 31873299
[36]	Wu Jing. 2021. Research progress on common bean genomics study. Journal of Sichuan Agricultural University, 39 (1):4-10. (in Chinese)
	武晶. 2021. 普通菜豆基因组研究进展. 四川农业大学学报, 39 (1):4-10.
[37]	Xiao Jing, Li Bin, Shi Xiao-hua, E Cheng-lin, Guan Hong-bo, Feng Tong. 2016. Research progress on germplasm resources of common beans. Northern Horticulture, 40 (15):194-198. (in Chinese)
	肖靖, 李斌, 石晓华, 鄂成林, 管洪波, 凤桐. 2016. 普通菜豆种质资源研究现状及进展. 北方园艺, 40 (15):194-198.
[38]	Xu Yun-bi, Yang Quan-nü, Zheng Hong-jian, Xu Yan-fen, Sang Zhi-qin, Guo Zi-feng, Peng Hai, Zhang Cong, Lan Hao-fa, Wang Yun-bo, Wu Kun-sheng, Tao Jia-jun, Zhang Jia-nan. 2020. Genotyping by target sequencing(GBTS)and its applications. Scientia Agricultura Sinica, 53 (15):2983-3004. (in Chinese)
	徐云碧, 杨泉女, 郑洪建, 许彦芬, 桑志勤, 郭子锋, 彭海, 张丛, 蓝昊发, 王蕴波, 吴坤生, 陶家军, 张嘉楠. 2020. 靶向测序基因型检测(GBTS)技术及其应用. 中国农业科学, 53 (15):2983-3004. doi: 10.3864/j.issn.0578-1752.2020.15.001
[39]	Yang J J, Zhang J, Du H S, Zhao H, Mao A J, Zhang X F, Jiang L, Zhang H Y, Wen C L, Xu Y. 2022. Genetic relationship and pedigree of Chinese watermelon varieties based on diversity of perfect SNPs. Horticultural Plant Journal, 8 (4):489-498.
[40]	Zhang Chi-hong, Wang Shu-min. 2005. The genetic diversity assessment of common bean germplasm resources by using SSR markers. Acta Agronomica Sinica, 31 (5):619-627. (in Chinese)
	张赤红, 王述民. 2005. 利用SSR标记评价普通菜豆种质遗传多样性. 作物学报, 31 (5):619-627.
[41]	Zhang Chi-hong, Wang Shu-min, Cao Yong-sheng, Zong Xiao-xu. 2005. Morphological diversity and classification of common bean(Phaseolus vulgaris L.)germplasm resource in China. Scientia Agricultura Sinica, 38 (1):27-32. (in Chinese)
	张赤红, 王述民, 曹永生, 宗绪晓. 2005. 普通菜豆种质资源形态多样性鉴定与分类研究. 中国农业科学, 38 (1):27-32.
[42]	Zhang J, Yang J J, Fu S Z, Ren J, Zhang X F, Xia C X, Zhao H, Yang K, Wen C L. 2022. Comparison of DUS testing and SNP fingerprinting for variety identification in cucumber. Horticultural Plant Journal, 8 (5):575-582.
[43]	Zhang Li-na, Cao Gui-lan, Han Long-zhi. 2012. Analysis of genetic diversity of japonica rice landrace in China with microsatellite marker. Scientia Agricultura Sinica, 45 (3):405-413. (in Chinese) doi: 10.3864/j.issn.0578-1752.2012.03.001
	张立娜, 曹桂兰, 韩龙植. 2012. 利用SSR标记揭示中国粳稻地方品种遗传多样性. 中国农业科学, 45 (3):405-413. doi: 10.3864/j.issn.0578-1752.2012.03.001
[44]	Zheng Zhuo-jie. 1997. Chinese edible legumes. Beijing: China Agriculture Press. (in Chinese)
	郑卓杰. 1997. 中国食用豆类学. 北京: 中国农业出版社.

来源	编号	品种	来源	编号	品种
Origin	Code	Name	Origin	Code	Name
黑龙江省尚志市亚布力致富源良种繁育场Heilongjiang Shangzhi Yabuli Zhifuyuan Stock Breeding Center	Pv01	香蕉豆 Xiangjiaodou	南京绿领种业有限公司 Nanjing Lvling Seed Co.，Ltd	Pv46	中华一号 Zhonghua 1
	Pv02	压趴架大油豆 Yapajia Dayoudou	南京理想农业科技有限公司 Nanjing Ideal Seed Co.，Ltd	Pv47	荚满地 Jiamandi
	Pv03	一棵松油豆 Yikesong Youdou	江苏地方品种 Jiangsu Local Cultivar	Pv48	19-05叶海黑粒四季豆 19-05 Yehai Heili Sijidou
黑龙江省尚志市亚布力种子繁育基地 Heilongjiang Shangzhi Yabuli Seed Breeding Base	Pv04	兔子翻白眼 Tuzi Fanbaiyan		Pv49	1906仪征四季豆 1906 Yizheng Sijidou
黑龙江亚布力庆丰种业繁育中心 Heilongjiang Yabuli Qingfeng Seed Breeding Center	Pv05	开锅烂油豆 Kaiguolan Youdou	浙江勿忘农种业股份有限公司 Zhejiang Wuwangnong Seeds Shareholding Co.，Ltd	Pv50	丽芸3号 Liyun 3
黑龙江省尚志市亚布力镇蔬菜繁育基地Heilongjiang Shangzhi Yabuli Vegetable Breeding Center	Pv06	九月青油豆 Jiuyueqing Youdou		Pv51	丽芸2号 Liyun 2
黑龙江亚布力蔬菜种子繁育基地 Heilongjiang Yabuli Vegetable Seed Breeding Center	Pv07	大马掌油豆 Damazhang Youdou	杭州科丰种子有限公司 Hangzhou Kefeng Seed Co.，Ltd	Pv52	红花青荚四季豆 Honghua Qingjia Sijidou
哈尔滨市金龙农业有限公司 Harbin Jinling Agriculture Co.，Ltd	Pv08	日本青刀豆 Ribenqing Daodou		Pv53	龙丰一号四季豆 Longfeng 1 Sijidou
	Pv09	黄金钩地豆 Huangjingou Didou	浙江之豇种业有限公司 Zhejiang Zhijiang Seed Co.，Ltd	Pv54	浙青2号 Zheqing 2
	Pv10	勾勾黄架豆 Gougouhuang Jiadou		Pv55	浙芸3号 Zheyun 3
哈尔滨市农业科学院 Harbin Academy of Agricultural and Sciences	Pv11	绿优早地油豆 Lüyouzao Diyoudou	上海农乐种植有限公司 Shanghai Nongle Planting Co.，Ltd	Pv56	红筋架豆王 Hongjin Jiadouwang
哈尔滨阿城市利农良种研究所 Harbin Acheng Lilongliangzhong Insitute	Pv12	三叶紫花架油豆 Sanye Zihua Jiayoudou		Pv57	无筋地刀豆 Wujin Didaodou
吉林省扶余市益农种业有限公司 Jilin Fuyu Yinong Seed Co.，Ltd	Pv13	龙泉九粒白 Longquan Jiulibai	江西宜春市信用种苗中心 Jiangxi Yichun Credit Seedling Centre	Pv58	红花四季豆 Honghua Sijidou
	Pv14	八月忙冻死鬼 Bayuemang Dongsi gui	长沙新万农种业有限公司 Changsha Xinwannong Seed Co.，Ltd	Pv59	赛嫩玉豆 Sainen Yudou
吉林鑫鑫菜籽商店 Jilin Xinxin Canola Store	Pv15	将军一点红 Jiangjun Yidianhong	四川省绵阳市华灵高科良种繁育研究中心Sichun Mianyang Hualing Gaoke Breeding Research Center	Pv60	红花白荚 Honghua Baijia
	Pv16	无筋泰国架豆王 Wujin Taiguo Jiadouwang	四川省绵阳科兴种业有限公司 Sichuan Mianyang Kexing Seed Co.，Ltd	Pv61	科兴无筋架豆 Kexing Wujin Jiadou
吉林盛宇种业有限公司 Jilin Shengyu Seed Co.，Ltd	Pv17	抗病大马掌 Kangbing Damazhang	南宁桂研种业有限公司 Nanning Guiyan Seed Co.，Ltd	Pv62	泰优玉美人8号 Taiyou Yumeiren 8
河北金盛优品农业科技有限公司 Hebei Jinsheng Youpin Agricultural Technology Co.，Ltd	Pv18	摘不败八月黄 Zhaibubai Bayuehuang		Pv63	绿宝高产36号玉豆 Lübao Gaochan 36 Yudou
吉林农家品种 Jilin Local Cultivar	Pv19	家雀蛋 Jiaquedan		Pv64	精选双青十二号玉豆Jingxuan Shuangqing 12 Yudou
河北青县纯丰蔬菜良种繁育场 Hebei Qing County Chunfeng Vegetable Breeding Center	Pv20	雪莲架豆 Xuelian Jiadou		Pv65	泰优18号玉豆 Taiyou 18 Yudou
	Pv21	华煜快豆 Huayukuaidou		Pv66	泰丰19号玉豆 Taifeng 19 Yudou
沧州津科力丰种苗有限责任公司 Cangzhou Jinke Lifeng Seedling Co.，Ltd	Pv22	秋紫豆 Qiuzidou		Pv67	泰美春宝32号 Taimei Chunbao 32
	Pv23	白不老架豆王 Baibulao Jiadouwang		Pv68	泰秀30号玉豆 Taixiu 30 Yudou
河北青县纯丰蔬菜良种繁育场 Hebei Qing County Chunfeng Vegetable Breeding Center	Pv24	中华红架豆 Zhonghuahong Jiadou		Pv69	绿优28号玉豆 Lüyou 28 Yudou
	Pv25	天马地豆 Tianma Didou		Pv70	广泰秀美28号 Guangtai Xiumei 28
河北拖车头农业科技有限公司 Hebei Tuochetou Agricultural Technology Co.，Ltd	Pv26	红灯笼 Hongdenglong		Pv71	泰玉20号玉豆 Taiyu 20 Yudou
	Pv27	一代双骄 Yidai Shuangjiao	广东省江门市新兴种业有限公司Guangdong Jiangmen Xinxing Seed Co.，Ltd	Pv72	地豆王二号 Didouwang 2
	Pv28	黄金豆 Huangjindou	海口永丰华生种子有限公司 Haihou Yongfeng Huasheng Seed Co.，Ltd	Pv73	广州双青一号玉豆 Guangzhou Shuangqing 1 Yudou
定州市富胜种子蔬菜销售有限公司 Dingzhou Fusheng Vegetable Seed Co.，Ltd	Pv29	北京宽荚白莲 Beijing Kuanjia Bailian	厦农（厦门）农业科技有限公司Xianong（Xiamen） Agricultural Technology Co.，Ltd	Pv74	青芸直尚 Qingyun Zhishang
河北地方品种 Hebei Local Cultivar	Pv30	鞍纹大芸豆1 Anwen Dayundou 1	未知 Unknown	Pv75	大白芸豆 Dabai Yundou
	Pv31	鞍纹大芸豆2 Anwen Dayundou 2	青岛农业科学院 Qingdao Academy of Agricultural and Sciences	Pv76	2018YD45
北京金盛优品农业科技有限公司 Beijing Jinsheng Youpin Agricultural Technology Co.，Ltd	Pv32	新无筋早地豆 Xinwujin Zaodidou		Pv77	2018YD04
天津市蓟宏农业科技有限公司 Tianjing Jihong Agricultural Technology Co.，Ltd	Pv33	一挂鞭架豆 Yiguabian Jiadou	青岛农业科学院 Qingdao Academy of Agricultural and Sciences	Pv78	2018YD46
天津市蓟农种子有限公司 Tianjing Jinong Seed Co.，Ltd	Pv34	蓟农双丰二号 Jinong Shuangfeng 2		Pv79	2018YD29
	Pv35	阿维斯双丰三号 Aweisi Shuangfeng 3		Pv80	2018YD13
内蒙古农家品种 Inner Mongolia Local Cultivar	Pv36	农家红芸豆 Nongjia Hongyundou		Pv81	2018YD03
新乡市神牛种子有限公司 Xinxiang City Shenniu Seed Co.，Ltd	Pv37	摘不败秋紫豆 Zhaibubai Qiuzidou		Pv82	2018YD10
宁夏平罗兴农蔬菜种苗有限公司 Ningxia Luoping Xingnong Vegetable Seedling Co.，Ltd	Pv38	宁兴高产地豆王 Ningxing Gaochan Didouwang		Pv83	2018YD26
山西地方品种 Shanxi Local Cultivar	Pv39	红宝石芸豆 Hongbaoshi Yundou		Pv84	2018YD16
山东德州市德城区德超种业有限公司 Shandong Dezhou Decheng Dechao Seed Co.，Ltd	Pv40	特嫩压塌架 Tenen Yatajia		Pv85	2018YD06
山东德州市德蔬种业有限公司 Shandong Dezhou Deshu Seed Co.，Ltd	Pv41	德蔬地豆王 Deshu Didouwang		Pv86	2018YD48
	Pv42	红玉天使架豆 Hongyu Tianshi Jiadou		Pv87	2018YD01
山东临朐县天和种业有限公司 Shandong Linqu County Tianhe Seed Co.，Ltd	Pv43	老来少架豆王 Laolaishao Jiadouwang		Pv88	2018YD49
莱阳华绿种苗有限公司 Laiyang Hualü Seedling Co.，Ltd	Pv44	浓绿江户川青刀豆 Nonglü Jianghuchuan Qingdaodou		Pv89	2018YD21
济南龙泉种子有限公司 Jinan Longquan Seed Co.，Ltd	Pv45	超级九粒白 Chaoji Jiulibai

来源	编号	品种	来源	编号	品种
Origin	Code	Name	Origin	Code	Name
黑龙江省尚志市亚布力致富源良种繁育场Heilongjiang Shangzhi Yabuli Zhifuyuan Stock Breeding Center	Pv01	香蕉豆 Xiangjiaodou	南京绿领种业有限公司 Nanjing Lvling Seed Co.，Ltd	Pv46	中华一号 Zhonghua 1
	Pv02	压趴架大油豆 Yapajia Dayoudou	南京理想农业科技有限公司 Nanjing Ideal Seed Co.，Ltd	Pv47	荚满地 Jiamandi
	Pv03	一棵松油豆 Yikesong Youdou	江苏地方品种 Jiangsu Local Cultivar	Pv48	19-05叶海黑粒四季豆 19-05 Yehai Heili Sijidou
黑龙江省尚志市亚布力种子繁育基地 Heilongjiang Shangzhi Yabuli Seed Breeding Base	Pv04	兔子翻白眼 Tuzi Fanbaiyan		Pv49	1906仪征四季豆 1906 Yizheng Sijidou
黑龙江亚布力庆丰种业繁育中心 Heilongjiang Yabuli Qingfeng Seed Breeding Center	Pv05	开锅烂油豆 Kaiguolan Youdou	浙江勿忘农种业股份有限公司 Zhejiang Wuwangnong Seeds Shareholding Co.，Ltd	Pv50	丽芸3号 Liyun 3
黑龙江省尚志市亚布力镇蔬菜繁育基地Heilongjiang Shangzhi Yabuli Vegetable Breeding Center	Pv06	九月青油豆 Jiuyueqing Youdou		Pv51	丽芸2号 Liyun 2
黑龙江亚布力蔬菜种子繁育基地 Heilongjiang Yabuli Vegetable Seed Breeding Center	Pv07	大马掌油豆 Damazhang Youdou	杭州科丰种子有限公司 Hangzhou Kefeng Seed Co.，Ltd	Pv52	红花青荚四季豆 Honghua Qingjia Sijidou
哈尔滨市金龙农业有限公司 Harbin Jinling Agriculture Co.，Ltd	Pv08	日本青刀豆 Ribenqing Daodou		Pv53	龙丰一号四季豆 Longfeng 1 Sijidou
	Pv09	黄金钩地豆 Huangjingou Didou	浙江之豇种业有限公司 Zhejiang Zhijiang Seed Co.，Ltd	Pv54	浙青2号 Zheqing 2
	Pv10	勾勾黄架豆 Gougouhuang Jiadou		Pv55	浙芸3号 Zheyun 3
哈尔滨市农业科学院 Harbin Academy of Agricultural and Sciences	Pv11	绿优早地油豆 Lüyouzao Diyoudou	上海农乐种植有限公司 Shanghai Nongle Planting Co.，Ltd	Pv56	红筋架豆王 Hongjin Jiadouwang
哈尔滨阿城市利农良种研究所 Harbin Acheng Lilongliangzhong Insitute	Pv12	三叶紫花架油豆 Sanye Zihua Jiayoudou		Pv57	无筋地刀豆 Wujin Didaodou
吉林省扶余市益农种业有限公司 Jilin Fuyu Yinong Seed Co.，Ltd	Pv13	龙泉九粒白 Longquan Jiulibai	江西宜春市信用种苗中心 Jiangxi Yichun Credit Seedling Centre	Pv58	红花四季豆 Honghua Sijidou
	Pv14	八月忙冻死鬼 Bayuemang Dongsi gui	长沙新万农种业有限公司 Changsha Xinwannong Seed Co.，Ltd	Pv59	赛嫩玉豆 Sainen Yudou
吉林鑫鑫菜籽商店 Jilin Xinxin Canola Store	Pv15	将军一点红 Jiangjun Yidianhong	四川省绵阳市华灵高科良种繁育研究中心Sichun Mianyang Hualing Gaoke Breeding Research Center	Pv60	红花白荚 Honghua Baijia
	Pv16	无筋泰国架豆王 Wujin Taiguo Jiadouwang	四川省绵阳科兴种业有限公司 Sichuan Mianyang Kexing Seed Co.，Ltd	Pv61	科兴无筋架豆 Kexing Wujin Jiadou
吉林盛宇种业有限公司 Jilin Shengyu Seed Co.，Ltd	Pv17	抗病大马掌 Kangbing Damazhang	南宁桂研种业有限公司 Nanning Guiyan Seed Co.，Ltd	Pv62	泰优玉美人8号 Taiyou Yumeiren 8
河北金盛优品农业科技有限公司 Hebei Jinsheng Youpin Agricultural Technology Co.，Ltd	Pv18	摘不败八月黄 Zhaibubai Bayuehuang		Pv63	绿宝高产36号玉豆 Lübao Gaochan 36 Yudou
吉林农家品种 Jilin Local Cultivar	Pv19	家雀蛋 Jiaquedan		Pv64	精选双青十二号玉豆Jingxuan Shuangqing 12 Yudou
河北青县纯丰蔬菜良种繁育场 Hebei Qing County Chunfeng Vegetable Breeding Center	Pv20	雪莲架豆 Xuelian Jiadou		Pv65	泰优18号玉豆 Taiyou 18 Yudou
	Pv21	华煜快豆 Huayukuaidou		Pv66	泰丰19号玉豆 Taifeng 19 Yudou
沧州津科力丰种苗有限责任公司 Cangzhou Jinke Lifeng Seedling Co.，Ltd	Pv22	秋紫豆 Qiuzidou		Pv67	泰美春宝32号 Taimei Chunbao 32
	Pv23	白不老架豆王 Baibulao Jiadouwang		Pv68	泰秀30号玉豆 Taixiu 30 Yudou
河北青县纯丰蔬菜良种繁育场 Hebei Qing County Chunfeng Vegetable Breeding Center	Pv24	中华红架豆 Zhonghuahong Jiadou		Pv69	绿优28号玉豆 Lüyou 28 Yudou
	Pv25	天马地豆 Tianma Didou		Pv70	广泰秀美28号 Guangtai Xiumei 28
河北拖车头农业科技有限公司 Hebei Tuochetou Agricultural Technology Co.，Ltd	Pv26	红灯笼 Hongdenglong		Pv71	泰玉20号玉豆 Taiyu 20 Yudou
	Pv27	一代双骄 Yidai Shuangjiao	广东省江门市新兴种业有限公司Guangdong Jiangmen Xinxing Seed Co.，Ltd	Pv72	地豆王二号 Didouwang 2
	Pv28	黄金豆 Huangjindou	海口永丰华生种子有限公司 Haihou Yongfeng Huasheng Seed Co.，Ltd	Pv73	广州双青一号玉豆 Guangzhou Shuangqing 1 Yudou
定州市富胜种子蔬菜销售有限公司 Dingzhou Fusheng Vegetable Seed Co.，Ltd	Pv29	北京宽荚白莲 Beijing Kuanjia Bailian	厦农（厦门）农业科技有限公司Xianong（Xiamen） Agricultural Technology Co.，Ltd	Pv74	青芸直尚 Qingyun Zhishang
河北地方品种 Hebei Local Cultivar	Pv30	鞍纹大芸豆1 Anwen Dayundou 1	未知 Unknown	Pv75	大白芸豆 Dabai Yundou
	Pv31	鞍纹大芸豆2 Anwen Dayundou 2	青岛农业科学院 Qingdao Academy of Agricultural and Sciences	Pv76	2018YD45
北京金盛优品农业科技有限公司 Beijing Jinsheng Youpin Agricultural Technology Co.，Ltd	Pv32	新无筋早地豆 Xinwujin Zaodidou		Pv77	2018YD04
天津市蓟宏农业科技有限公司 Tianjing Jihong Agricultural Technology Co.，Ltd	Pv33	一挂鞭架豆 Yiguabian Jiadou	青岛农业科学院 Qingdao Academy of Agricultural and Sciences	Pv78	2018YD46
天津市蓟农种子有限公司 Tianjing Jinong Seed Co.，Ltd	Pv34	蓟农双丰二号 Jinong Shuangfeng 2		Pv79	2018YD29
	Pv35	阿维斯双丰三号 Aweisi Shuangfeng 3		Pv80	2018YD13
内蒙古农家品种 Inner Mongolia Local Cultivar	Pv36	农家红芸豆 Nongjia Hongyundou		Pv81	2018YD03
新乡市神牛种子有限公司 Xinxiang City Shenniu Seed Co.，Ltd	Pv37	摘不败秋紫豆 Zhaibubai Qiuzidou		Pv82	2018YD10
宁夏平罗兴农蔬菜种苗有限公司 Ningxia Luoping Xingnong Vegetable Seedling Co.，Ltd	Pv38	宁兴高产地豆王 Ningxing Gaochan Didouwang		Pv83	2018YD26
山西地方品种 Shanxi Local Cultivar	Pv39	红宝石芸豆 Hongbaoshi Yundou		Pv84	2018YD16
山东德州市德城区德超种业有限公司 Shandong Dezhou Decheng Dechao Seed Co.，Ltd	Pv40	特嫩压塌架 Tenen Yatajia		Pv85	2018YD06
山东德州市德蔬种业有限公司 Shandong Dezhou Deshu Seed Co.，Ltd	Pv41	德蔬地豆王 Deshu Didouwang		Pv86	2018YD48
	Pv42	红玉天使架豆 Hongyu Tianshi Jiadou		Pv87	2018YD01
山东临朐县天和种业有限公司 Shandong Linqu County Tianhe Seed Co.，Ltd	Pv43	老来少架豆王 Laolaishao Jiadouwang		Pv88	2018YD49
莱阳华绿种苗有限公司 Laiyang Hualü Seedling Co.，Ltd	Pv44	浓绿江户川青刀豆 Nonglü Jianghuchuan Qingdaodou		Pv89	2018YD21
济南龙泉种子有限公司 Jinan Longquan Seed Co.，Ltd	Pv45	超级九粒白 Chaoji Jiulibai

编号 Code	原始读长数 Raw reads	干净读长数 Clean reads	原始碱基数/bp Raw bases	干净碱基数/bp Clean bases	比对读长数 Align reads	比对率/% Align rate	有效率/% Effective rate	Q20	Q30
Pv01	8 098 852	8 070 766	1 214 827 800	1 173 728 992	7 656 019	94.86	96.62	97.74	92.44
Pv02	5 789 802	5 770 124	868 470 300	825 811 078	5 359 340	92.88	95.09	98.01	93.42
Pv03	7 816 136	7 789 678	1 172 420 400	1 131 921 434	7 323 176	94.01	96.55	97.45	91.61
Pv04	7 047 902	7 024 020	1 057 185 300	1 011 814 446	6 687 162	95.20	95.71	97.72	92.37
Pv05	7 080 946	7 056 892	1 062 141 900	1 021 913 214	6 685 993	94.74	96.21	97.81	92.79
Pv06	8 536 526	8 508 450	1 280 478 900	1 226 760 962	8 018 564	94.24	95.80	97.79	92.63
Pv07	5 320 770	5 302 078	798 115 500	767 339 022	4 984 408	94.01	96.14	97.88	93.06
Pv08	5 731 130	5 711 446	859 669 500	818 679 944	5 321 662	93.18	95.23	97.76	92.49
Pv09	8 312 168	8 284 078	1 246 825 200	1 192 209 370	7 847 519	94.73	95.62	97.72	92.43
Pv10	5 737 552	5 717 664	860 632 800	835 172 092	5 416 408	94.73	97.04	97.72	92.43
Pv11	7 636 864	7 611 082	1 145 529 600	1 095 790 714	7 164 073	94.13	95.66	97.84	92.87
Pv12	3 098 470	3 087 418	464 770 500	439 198 858	2 853 437	92.42	94.50	98.37	94.59
Pv13	6 089 206	6 068 534	913 380 900	876 023 234	5 525 860	91.06	95.91	97.75	92.50
Pv14	6 742 030	6 719 166	1 011 304 500	972 387 718	6 158 895	91.66	96.15	97.80	92.66
Pv15	7 133 440	7 109 086	1 070 016 000	1 025 095 922	6 667 344	93.79	95.80	97.98	93.24
Pv16	6 983 360	6 959 954	1 047 504 000	1 004 470 008	6 414 434	92.16	95.89	97.55	91.89
Pv17	4 437 716	4 422 562	665 657 400	633 980 678	4 136 234	93.53	95.24	98.26	94.22
Pv18	5 119 318	5 101 940	767 897 700	726 250 480	4 813 235	94.34	94.58	98.15	93.88
Pv19	7 449 680	7 424 586	1 117 452 000	1 067 824 744	7 011 514	94.44	95.56	97.97	93.38
Pv20	7 918 080	7 891 088	1 187 712 000	1 148 448 130	7 223 517	91.54	96.69	97.50	91.67
Pv21	7 008 252	6 984 480	1 051 237 800	1 014 563 204	6 406 385	91.72	96.51	97.57	91.90
Pv22	4 030 630	4 017 024	604 594 500	579 570 558	3 679 759	91.60	95.86	97.52	91.81
Pv23	5 611 150	5 592 006	841 672 500	809 023 072	5 125 314	91.65	96.12	97.28	91.15
Pv24	3 049 720	3 041 280	457 458 000	392 415 760	2 738 569	90.05	85.78	98.58	95.24
Pv25	4 124 312	4 110 136	618 646 800	589 331 084	3 834 557	93.30	95.26	97.80	92.68
Pv26	5 852 764	5 832 946	877 914 600	849 599 058	5 332 649	91.42	96.77	97.69	92.25
Pv27	7 049 974	7 025 392	1 057 496 100	1 009 922 856	6 460 748	91.96	95.50	97.86	92.79
Pv28	7 709 688	7 683 630	1 156 453 200	1 106 745 810	7 022 063	91.39	95.70	97.60	92.04
Pv29	7 568 282	7 542 736	1 135 242 300	1 088 137 392	6 988 620	92.65	95.85	97.67	92.24
Pv30	3 002 474	2 991 998	450 371 100	423 707 654	2 804 127	93.72	94.08	98.41	94.70
Pv31	7 769 006	7 743 504	1 165 350 900	1 112 068 434	7 347 421	94.88	95.43	97.82	92.78
Pv32	6 583 480	6 562 116	987 522 000	946 078 096	6 143 616	93.62	95.80	97.60	92.07
Pv33	6 943 390	6 919 310	1 041 508 500	997 557 318	6 325 013	91.41	95.78	97.88	92.96
Pv34	6 651 502	6 628 502	997 725 300	954 889 330	6 037 645	91.09	95.71	97.66	92.29
Pv35	16 515 772	16 486 982	2 477 365 800	2 314 193 540	15 197 899	92.18	93.41	98.34	94.34
Pv36	8 663 510	8 634 920	1 299 526 500	1 235 250 830	8 140 449	94.27	95.05	97.63	92.14
Pv37	6 477 232	6 455 580	971 584 800	927 022 220	5 884 989	91.16	95.41	97.77	92.73
Pv38	8 044 132	8 016 870	1 206 619 800	1 150 362 636	7 474 688	93.24	95.34	97.70	92.41
Pv39	7 639 474	7 613 382	1 145 921 100	1 090 946 618	7 174 002	94.23	95.20	97.83	92.78
Pv40	7 361 614	7 337 070	1 104 242 100	1 066 060 554	6 703 574	91.37	96.54	97.57	91.86
Pv41	7 505 308	7 480 256	1 125 796 200	1 080 668 216	6 893 819	92.16	95.99	97.72	92.44
Pv42	7 348 356	7 324 392	1 102 253 400	1 063 679 164	6 768 694	92.41	96.50	97.30	91.03
Pv43	6 587 980	6 565 632	988 197 000	946 190 986	6 004 408	91.45	95.75	97.54	91.90
Pv44	7 403 192	7 379 070	1 110 478 800	1 058 345 682	6 901 485	93.53	95.31	97.57	91.97
Pv45	7 764 072	7 737 444	1 164 610 800	1 108 132 120	7 056 881	91.20	95.15	97.79	92.62
Pv46	4 830 616	4 814 580	724 592 400	696 981 244	4 397 219	91.33	96.19	97.88	93.05
Pv47	7 547 974	7 522 116	1 132 196 100	1 078 148 092	7 025 146	93.39	95.23	97.88	92.86
Pv48	6 978 052	6 954 442	1 046 707 800	1 001 538 926	6 352 621	91.35	95.68	97.79	92.65
Pv49	6 826 836	6 804 008	1 024 025 400	985 507 780	6 214 244	91.33	96.24	97.76	92.53
Pv50	5 268 676	5 251 028	790 301 400	754 087 146	4 785 144	91.13	95.42	97.75	92.40
Pv51	6 257 576	6 236 592	938 636 400	894 014 262	5 688 008	91.20	95.25	97.81	92.69
Pv52	6 214 442	6 193 152	932 166 300	895 366 264	5 662 541	91.43	96.05	97.83	92.81
Pv53	7 123 026	7 099 578	1 068 453 900	1 025 234 062	6 483 231	91.32	95.95	97.67	92.23
Pv54	2 996 190	2 985 946	449 428 500	430 855 692	2 736 528	91.65	95.87	98.09	93.66
Pv55	3 334 436	3 323 366	500 165 400	482 901 568	3 040 272	91.48	96.55	97.29	91.07
Pv56	5 981 750	5 961 578	897 262 500	864 283 148	5 454 974	91.50	96.32	97.51	91.69
Pv57	6 743 544	6 720 248	1 011 531 600	966 479 926	6 292 623	93.64	95.55	97.99	93.32
Pv58	6 757 314	6 734 582	1 013 597 100	967 411 196	6 149 238	91.31	95.44	97.66	92.26
Pv59	6 644 366	6 622 624	996 654 900	952 675 344	6 039 136	91.19	95.59	97.71	92.41
Pv60	3 308 738	3 297 088	496 310 700	473 938 530	3 006 470	91.19	95.49	98.13	93.75
Pv61	7 164 518	7 140 300	1 074 677 700	1 028 969 692	6 606 890	92.53	95.75	97.82	92.79
Pv62	6 544 594	6 522 146	981 689 100	937 859 972	5 945 974	91.17	95.54	97.57	91.96
Pv63	6 262 790	6 242 050	939 418 500	901 268 214	5 721 647	91.66	95.94	97.61	92.12
Pv64	7 756 110	7 729 588	1 163 416 500	1 110 586 330	7 062 279	91.37	95.46	97.69	92.31
Pv65	7 212 746	7 189 088	1 081 911 900	1 038 137 070	6 569 530	91.38	95.95	97.64	92.24
Pv66	6 842 464	6 819 456	1 026 369 600	980 771 280	6 227 660	91.32	95.56	97.80	92.66
Pv67	5 491 250	5 472 356	823 687 500	786 889 766	5 007 569	91.51	95.53	98.22	94.03
Pv68	8 598 260	8 569 182	1 289 739 000	1 225 043 812	7 824 318	91.31	94.98	97.96	93.23
Pv69	7 098 136	7 074 072	1 064 720 400	1 021 245 826	6 476 276	91.55	95.92	97.89	92.98
Pv70	6 744 486	6 721 580	1 011 672 900	970 160 098	6 153 450	91.55	95.90	97.50	91.86
Pv71	6 954 908	6 932 014	1 043 236 200	997 598 058	6 333 065	91.36	95.63	97.56	91.86
Pv72	6 947 998	6 924 592	1 042 199 700	995 918 234	6 390 351	92.28	95.56	97.92	93.06
Pv73	11 385 340	11 365 232	1 707 801 000	1 521 977 790	10 427 776	91.75	89.12	98.37	94.62
Pv74	6 704 026	6 681 088	1 005 603 900	966 719 208	6 098 771	91.28	96.13	97.64	92.13
Pv75	15 259 508	15 229 100	2 288 926 200	2 115 314 516	13 656 417	89.67	92.42	98.24	94.14
Pv76	6 308 324	6 287 108	946 248 600	904 804 666	5 822 194	92.61	95.62	98.04	93.56
Pv77	5 934 858	5 915 132	890 228 700	860 418 210	5 605 331	94.76	96.65	97.57	91.79
Pv78	7 053 330	7 029 220	1 057 999 500	1 014 776 334	6 427 694	91.44	95.91	97.83	92.76
Pv79	6 626 144	6 603 632	993 921 600	954 116 282	6 234 280	94.41	96.00	97.74	92.42
Pv80	7 477 584	7 452 982	1 121 637 600	1 073 606 700	6 968 107	93.49	95.72	97.59	92.08
Pv81	6 965 426	6 941 310	1 044 813 900	1 002 425 192	6 527 168	94.03	95.94	98.23	94.06
Pv82	7 585 280	7 559 696	1 137 792 000	1 094 479 824	6 903 582	91.32	96.19	97.73	92.43
Pv83	8 660 626	8 630 762	1 299 093 900	1 241 602 578	7 908 789	91.63	95.57	97.98	93.28
Pv84	7 290 040	7 264 834	1 093 506 000	1 048 919 858	6 648 774	91.52	95.92	97.60	92.08
Pv85	7 969 190	7 941 526	1 195 378 500	1 149 028 462	7 385 800	93.00	96.12	97.99	93.34
Pv86	7 584 448	7 558 542	1 137 667 200	1 082 746 918	6 911 071	91.43	95.17	98.27	94.17
Pv87	7 584 774	7 558 902	1 137 716 100	1 083 325 126	6 884 039	91.07	95.22	97.91	93.08
Pv88	7 352 392	7 327 872	1 102 858 800	1 066 357 808	6 738 930	91.96	96.69	97.38	91.41
Pv89	6 766 290	6 743 796	1 014 943 500	967 162 154	6 191 315	91.81	95.29	97.74	92.52

编号 Code	原始读长数 Raw reads	干净读长数 Clean reads	原始碱基数/bp Raw bases	干净碱基数/bp Clean bases	比对读长数 Align reads	比对率/% Align rate	有效率/% Effective rate	Q20	Q30
Pv01	8 098 852	8 070 766	1 214 827 800	1 173 728 992	7 656 019	94.86	96.62	97.74	92.44
Pv02	5 789 802	5 770 124	868 470 300	825 811 078	5 359 340	92.88	95.09	98.01	93.42
Pv03	7 816 136	7 789 678	1 172 420 400	1 131 921 434	7 323 176	94.01	96.55	97.45	91.61
Pv04	7 047 902	7 024 020	1 057 185 300	1 011 814 446	6 687 162	95.20	95.71	97.72	92.37
Pv05	7 080 946	7 056 892	1 062 141 900	1 021 913 214	6 685 993	94.74	96.21	97.81	92.79
Pv06	8 536 526	8 508 450	1 280 478 900	1 226 760 962	8 018 564	94.24	95.80	97.79	92.63
Pv07	5 320 770	5 302 078	798 115 500	767 339 022	4 984 408	94.01	96.14	97.88	93.06
Pv08	5 731 130	5 711 446	859 669 500	818 679 944	5 321 662	93.18	95.23	97.76	92.49
Pv09	8 312 168	8 284 078	1 246 825 200	1 192 209 370	7 847 519	94.73	95.62	97.72	92.43
Pv10	5 737 552	5 717 664	860 632 800	835 172 092	5 416 408	94.73	97.04	97.72	92.43
Pv11	7 636 864	7 611 082	1 145 529 600	1 095 790 714	7 164 073	94.13	95.66	97.84	92.87
Pv12	3 098 470	3 087 418	464 770 500	439 198 858	2 853 437	92.42	94.50	98.37	94.59
Pv13	6 089 206	6 068 534	913 380 900	876 023 234	5 525 860	91.06	95.91	97.75	92.50
Pv14	6 742 030	6 719 166	1 011 304 500	972 387 718	6 158 895	91.66	96.15	97.80	92.66
Pv15	7 133 440	7 109 086	1 070 016 000	1 025 095 922	6 667 344	93.79	95.80	97.98	93.24
Pv16	6 983 360	6 959 954	1 047 504 000	1 004 470 008	6 414 434	92.16	95.89	97.55	91.89
Pv17	4 437 716	4 422 562	665 657 400	633 980 678	4 136 234	93.53	95.24	98.26	94.22
Pv18	5 119 318	5 101 940	767 897 700	726 250 480	4 813 235	94.34	94.58	98.15	93.88
Pv19	7 449 680	7 424 586	1 117 452 000	1 067 824 744	7 011 514	94.44	95.56	97.97	93.38
Pv20	7 918 080	7 891 088	1 187 712 000	1 148 448 130	7 223 517	91.54	96.69	97.50	91.67
Pv21	7 008 252	6 984 480	1 051 237 800	1 014 563 204	6 406 385	91.72	96.51	97.57	91.90
Pv22	4 030 630	4 017 024	604 594 500	579 570 558	3 679 759	91.60	95.86	97.52	91.81
Pv23	5 611 150	5 592 006	841 672 500	809 023 072	5 125 314	91.65	96.12	97.28	91.15
Pv24	3 049 720	3 041 280	457 458 000	392 415 760	2 738 569	90.05	85.78	98.58	95.24
Pv25	4 124 312	4 110 136	618 646 800	589 331 084	3 834 557	93.30	95.26	97.80	92.68
Pv26	5 852 764	5 832 946	877 914 600	849 599 058	5 332 649	91.42	96.77	97.69	92.25
Pv27	7 049 974	7 025 392	1 057 496 100	1 009 922 856	6 460 748	91.96	95.50	97.86	92.79
Pv28	7 709 688	7 683 630	1 156 453 200	1 106 745 810	7 022 063	91.39	95.70	97.60	92.04
Pv29	7 568 282	7 542 736	1 135 242 300	1 088 137 392	6 988 620	92.65	95.85	97.67	92.24
Pv30	3 002 474	2 991 998	450 371 100	423 707 654	2 804 127	93.72	94.08	98.41	94.70
Pv31	7 769 006	7 743 504	1 165 350 900	1 112 068 434	7 347 421	94.88	95.43	97.82	92.78
Pv32	6 583 480	6 562 116	987 522 000	946 078 096	6 143 616	93.62	95.80	97.60	92.07
Pv33	6 943 390	6 919 310	1 041 508 500	997 557 318	6 325 013	91.41	95.78	97.88	92.96
Pv34	6 651 502	6 628 502	997 725 300	954 889 330	6 037 645	91.09	95.71	97.66	92.29
Pv35	16 515 772	16 486 982	2 477 365 800	2 314 193 540	15 197 899	92.18	93.41	98.34	94.34
Pv36	8 663 510	8 634 920	1 299 526 500	1 235 250 830	8 140 449	94.27	95.05	97.63	92.14
Pv37	6 477 232	6 455 580	971 584 800	927 022 220	5 884 989	91.16	95.41	97.77	92.73
Pv38	8 044 132	8 016 870	1 206 619 800	1 150 362 636	7 474 688	93.24	95.34	97.70	92.41
Pv39	7 639 474	7 613 382	1 145 921 100	1 090 946 618	7 174 002	94.23	95.20	97.83	92.78
Pv40	7 361 614	7 337 070	1 104 242 100	1 066 060 554	6 703 574	91.37	96.54	97.57	91.86
Pv41	7 505 308	7 480 256	1 125 796 200	1 080 668 216	6 893 819	92.16	95.99	97.72	92.44
Pv42	7 348 356	7 324 392	1 102 253 400	1 063 679 164	6 768 694	92.41	96.50	97.30	91.03
Pv43	6 587 980	6 565 632	988 197 000	946 190 986	6 004 408	91.45	95.75	97.54	91.90
Pv44	7 403 192	7 379 070	1 110 478 800	1 058 345 682	6 901 485	93.53	95.31	97.57	91.97
Pv45	7 764 072	7 737 444	1 164 610 800	1 108 132 120	7 056 881	91.20	95.15	97.79	92.62
Pv46	4 830 616	4 814 580	724 592 400	696 981 244	4 397 219	91.33	96.19	97.88	93.05
Pv47	7 547 974	7 522 116	1 132 196 100	1 078 148 092	7 025 146	93.39	95.23	97.88	92.86
Pv48	6 978 052	6 954 442	1 046 707 800	1 001 538 926	6 352 621	91.35	95.68	97.79	92.65
Pv49	6 826 836	6 804 008	1 024 025 400	985 507 780	6 214 244	91.33	96.24	97.76	92.53
Pv50	5 268 676	5 251 028	790 301 400	754 087 146	4 785 144	91.13	95.42	97.75	92.40
Pv51	6 257 576	6 236 592	938 636 400	894 014 262	5 688 008	91.20	95.25	97.81	92.69
Pv52	6 214 442	6 193 152	932 166 300	895 366 264	5 662 541	91.43	96.05	97.83	92.81
Pv53	7 123 026	7 099 578	1 068 453 900	1 025 234 062	6 483 231	91.32	95.95	97.67	92.23
Pv54	2 996 190	2 985 946	449 428 500	430 855 692	2 736 528	91.65	95.87	98.09	93.66
Pv55	3 334 436	3 323 366	500 165 400	482 901 568	3 040 272	91.48	96.55	97.29	91.07
Pv56	5 981 750	5 961 578	897 262 500	864 283 148	5 454 974	91.50	96.32	97.51	91.69
Pv57	6 743 544	6 720 248	1 011 531 600	966 479 926	6 292 623	93.64	95.55	97.99	93.32
Pv58	6 757 314	6 734 582	1 013 597 100	967 411 196	6 149 238	91.31	95.44	97.66	92.26
Pv59	6 644 366	6 622 624	996 654 900	952 675 344	6 039 136	91.19	95.59	97.71	92.41
Pv60	3 308 738	3 297 088	496 310 700	473 938 530	3 006 470	91.19	95.49	98.13	93.75
Pv61	7 164 518	7 140 300	1 074 677 700	1 028 969 692	6 606 890	92.53	95.75	97.82	92.79
Pv62	6 544 594	6 522 146	981 689 100	937 859 972	5 945 974	91.17	95.54	97.57	91.96
Pv63	6 262 790	6 242 050	939 418 500	901 268 214	5 721 647	91.66	95.94	97.61	92.12
Pv64	7 756 110	7 729 588	1 163 416 500	1 110 586 330	7 062 279	91.37	95.46	97.69	92.31
Pv65	7 212 746	7 189 088	1 081 911 900	1 038 137 070	6 569 530	91.38	95.95	97.64	92.24
Pv66	6 842 464	6 819 456	1 026 369 600	980 771 280	6 227 660	91.32	95.56	97.80	92.66
Pv67	5 491 250	5 472 356	823 687 500	786 889 766	5 007 569	91.51	95.53	98.22	94.03
Pv68	8 598 260	8 569 182	1 289 739 000	1 225 043 812	7 824 318	91.31	94.98	97.96	93.23
Pv69	7 098 136	7 074 072	1 064 720 400	1 021 245 826	6 476 276	91.55	95.92	97.89	92.98
Pv70	6 744 486	6 721 580	1 011 672 900	970 160 098	6 153 450	91.55	95.90	97.50	91.86
Pv71	6 954 908	6 932 014	1 043 236 200	997 598 058	6 333 065	91.36	95.63	97.56	91.86
Pv72	6 947 998	6 924 592	1 042 199 700	995 918 234	6 390 351	92.28	95.56	97.92	93.06
Pv73	11 385 340	11 365 232	1 707 801 000	1 521 977 790	10 427 776	91.75	89.12	98.37	94.62
Pv74	6 704 026	6 681 088	1 005 603 900	966 719 208	6 098 771	91.28	96.13	97.64	92.13
Pv75	15 259 508	15 229 100	2 288 926 200	2 115 314 516	13 656 417	89.67	92.42	98.24	94.14
Pv76	6 308 324	6 287 108	946 248 600	904 804 666	5 822 194	92.61	95.62	98.04	93.56
Pv77	5 934 858	5 915 132	890 228 700	860 418 210	5 605 331	94.76	96.65	97.57	91.79
Pv78	7 053 330	7 029 220	1 057 999 500	1 014 776 334	6 427 694	91.44	95.91	97.83	92.76
Pv79	6 626 144	6 603 632	993 921 600	954 116 282	6 234 280	94.41	96.00	97.74	92.42
Pv80	7 477 584	7 452 982	1 121 637 600	1 073 606 700	6 968 107	93.49	95.72	97.59	92.08
Pv81	6 965 426	6 941 310	1 044 813 900	1 002 425 192	6 527 168	94.03	95.94	98.23	94.06
Pv82	7 585 280	7 559 696	1 137 792 000	1 094 479 824	6 903 582	91.32	96.19	97.73	92.43
Pv83	8 660 626	8 630 762	1 299 093 900	1 241 602 578	7 908 789	91.63	95.57	97.98	93.28
Pv84	7 290 040	7 264 834	1 093 506 000	1 048 919 858	6 648 774	91.52	95.92	97.60	92.08
Pv85	7 969 190	7 941 526	1 195 378 500	1 149 028 462	7 385 800	93.00	96.12	97.99	93.34
Pv86	7 584 448	7 558 542	1 137 667 200	1 082 746 918	6 911 071	91.43	95.17	98.27	94.17
Pv87	7 584 774	7 558 902	1 137 716 100	1 083 325 126	6 884 039	91.07	95.22	97.91	93.08
Pv88	7 352 392	7 327 872	1 102 858 800	1 066 357 808	6 738 930	91.96	96.69	97.38	91.41
Pv89	6 766 290	6 743 796	1 014 943 500	967 162 154	6 191 315	91.81	95.29	97.74	92.52

选择信号 Selective signal	染色体 Chr.	开始位置 Start position	终止位置 End position	群体分化指数 F_ST	选择信号 Selective signal	染色体 Chr.	开始位置 Start position	终止位置 End position	群体分化指数 F_ST
1	2	44 650 001	45 150 000	0.722	22	3	7 900 001	8 400 000	0.752
2	2	44 700 001	45 200 000	0.722	23	3	7 950 001	8 450 000	0.741
3	3	2 600 001	3 100 000	0.669	24	3	8 000 001	8 500 000	0.761
4	3	2 650 001	3 150 000	0.667	25	3	8 050 001	8 550 000	0.761
5	3	2 700 001	3 200 000	0.753	26	3	8 100 001	8 600 000	0.681
6	3	6 550 001	7 050 000	0.880	27	3	8 150 001	8 650 000	0.679
7	3	6 600 001	7 100 000	0.877	28	3	8 200 001	8 700 000	0.633
8	3	6 650 001	7 150 000	0.904	29	3	14 100 001	14 600 000	0.769
9	3	6 700 001	7 200 000	0.830	30	3	14 150 001	14 650 000	0.784
10	3	6 750 001	7 250 000	0.830	31	3	14 200 001	14 700 000	0.821
11	3	6 800 001	7 300 000	0.827	32	3	14 250 001	14 750 000	0.810
12	3	6 850 001	7 350 000	0.827	33	3	14 300 001	14 800 000	0.726
13	3	7 450 001	7 950 000	0.565	34	3	14 350 001	14 850 000	0.725
14	3	7 500 001	8 000 000	0.565	35	3	14 400 001	14 900 000	0.725
15	3	7 550 001	8 050 000	0.560	36	3	14 450 001	14 950 000	0.786
16	3	7 600 001	8 100 000	0.657	37	3	15 400 001	15 900 000	0.723
17	3	7 650 001	8 150 000	0.668	38	3	15 450 001	15 950 000	0.632
18	3	7 700 001	8 200 000	0.668	39	3	15 500 001	16 000 000	0.714
19	3	7 750 001	8 250 000	0.763	40	3	15 550 001	16 050 000	0.769
20	3	7 800 001	8 300 000	0.862	41	3	15 600 001	16 100 000	0.726
21	3	7 850 001	8 350 000	0.850	42	3	15 650 001	16 150 000	0.730
43	3	15 700 001	16 200 000	0.671	74	3	20 200 001	20 700 000	0.798
44	3	16 800 001	17 300 000	0.941	75	3	20 250 001	20 750 000	0.768
45	3	16 850 001	17 350 000	0.941	76	3	20 300 001	20 800 000	0.729
46	3	16 900 001	17 400 000	0.940	77	3	20 350 001	20 850 000	0.729
47	3	16 950 001	17 450 000	0.940	78	3	20 400 001	20 900 000	0.942
48	3	17 000 001	17 500 000	0.940	79	3	20 450 001	20 950 000	0.943
49	3	17 050 001	17 550 000	0.940	80	3	20 500 001	21 000 000	0.942
50	3	17 100 001	17 600 000	0.936	81	3	20 550 001	21 050 000	0.944
51	3	17 150 001	17 650 000	0.937	82	3	20 600 001	21 100 000	0.944
52	3	17 200 001	17 700 000	0.937	83	3	20 650 001	21 150 000	0.944
53	3	17 250 001	17 750 000	0.940	84	3	20 700 001	21 200 000	0.943
54	3	17 300 001	17 800 000	0.943	85	3	20 750 001	21 250 000	0.940
55	3	17 350 001	17 850 000	0.790	86	3	34 300 001	34 800 000	0.703
56	3	17 400 001	17 900 000	0.657	87	3	34 350 001	34 850 000	0.703
57	3	17 450 001	17 950 000	0.699	88	3	34 400 001	34 900 000	0.750
58	3	17 500 001	18 000 000	0.699	89	3	34 450 001	34 950 000	0.749
59	3	17 550 001	18 050 000	0.699	90	3	34 500 001	35 000 000	0.728
60	3	17 600 001	18 100 000	0.701	91	3	34 650 001	35 150 000	0.653
61	3	17 650 001	18 150 000	0.661	92	3	34 700 001	35 200 000	0.654
62	3	17 700 001	18 200 000	0.661	93	3	34 800 001	35 300 000	0.758
63	3	17 900 001	18 400 000	0.762	94	11	1 300 001	1 800 000	0.824
64	3	18 750 001	19 250 000	0.777	95	11	1 350 001	1 850 000	0.838
65	3	18 800 001	19 300 000	0.797	96	11	1 400 001	1 900 000	0.829
66	3	19 800 001	20 300 000	0.815	97	11	1 450 001	1 950 000	0.832
67	3	19 850 001	20 350 000	0.798	98	11	31 450 001	31 950 000	0.888
68	3	19 900 001	20 400 000	0.747	99	11	32 000 001	32 500 000	0.900
69	3	19 950 001	20 450 000	0.819	100	11	32 050 001	32 550 000	0.899
70	3	20 000 001	20 500 000	0.819	101	11	32 100 001	32 600 000	0.899
71	3	20 050 001	20 550 000	0.834	102	11	36 200 001	36 700 000	0.764
72	3	20 100 001	20 600 000	0.819	103	11	36 300 001	36 800 000	0.780
73	3	20 150 001	20 650 000	0.819