Dissection of the practical soybean breeding pipeline by developing ZDX1, a high-throughput functional array

生物 SNP基因分型 选择(遗传算法) 单核苷酸多态性 遗传学 基因分型 分子育种 植物育种 大豆孢囊线虫 计算生物学 基因 基因型 农学 计算机科学 人工智能
作者
Lijuan Qiu,Bincheng Sun,Yu Tian,Shanshan Su,Zhang Yong,Wanhai Zhang,Jingshun Wang,Ping Yu,Bingfu Guo,Huihui Li,Yanfei Li,Huawei Gao,Yongzhe Gu,Lili Yu,Yansong Ma,Erhu Su,Qiang Li,Xingguo Hu,Qí Zhāng,Rongqi Guo,Shen Chai,Lei Feng,Jun Wang,Huilong Hong,Jiangyuan Xu,Xindong Yao,Jing Wen,Jiqiang Liu,Yinghui Li,Lijuan Qiu
出处
期刊:Theoretical and Applied Genetics [Springer Science+Business Media]
卷期号:135 (4): 1413-1427 被引量:14
标识
DOI:10.1007/s00122-022-04043-w
摘要

We developed the ZDX1 high-throughput functional soybean array for high accuracy evaluation and selection of both parents and progeny, which can greatly accelerate soybean breeding. Microarray technology facilitates rapid, accurate, and economical genotyping. Here, using resequencing data from 2214 representative soybean accessions, we developed the high-throughput functional array ZDX1, containing 158,959 SNPs, covering 90.92% of soybean genes and sites related to important traits. By application of the array, a total of 817 accessions were genotyped, including three subpopulations of candidate parental lines, parental lines and their progeny from practical breeding. The fixed SNPs were identified in progeny, indicating artificial selection during the breeding process. By identifying functional sites of target traits, novel soybean cyst nematode-resistant progeny and maturity-related novel sources were identified by allele combinations, demonstrating that functional sites provide an efficient method for the rapid screening of desirable traits or gene sources. Notably, we found that the breeding index (BI) was a good indicator for progeny selection. Superior progeny were derived from the combination of distantly related parents, with at least one parent having a higher BI. Furthermore, new combinations based on good performance were proposed for further breeding after excluding redundant and closely related parents. Genomic best linear unbiased prediction (GBLUP) analysis was the best analysis method and achieved the highest accuracy in predicting four traits when comparing SNPs in genic regions rather than whole genomic or intergenic SNPs. The prediction accuracy was improved by 32.1% by using progeny to expand the training population. Collectively, a versatile assay demonstrated that the functional ZDX1 array provided efficient information for the design and optimization of a breeding pipeline for accelerated soybean breeding.
最长约 10秒,即可获得该文献文件

科研通智能强力驱动
Strongly Powered by AbleSci AI
更新
PDF的下载单位、IP信息已删除 (2025-6-4)

科研通是完全免费的文献互助平台,具备全网最快的应助速度,最高的求助完成率。 对每一个文献求助,科研通都将尽心尽力,给求助人一个满意的交代。
实时播报
默默若枫完成签到,获得积分10
1秒前
所所应助CHENGJIAO采纳,获得10
1秒前
1秒前
2秒前
Lee完成签到,获得积分10
3秒前
4秒前
4秒前
4秒前
5秒前
李演员完成签到,获得积分10
6秒前
打打应助michi采纳,获得10
6秒前
独角兽完成签到 ,获得积分10
7秒前
7秒前
7秒前
8秒前
老武发布了新的文献求助10
8秒前
Ngawang发布了新的文献求助10
9秒前
10秒前
传奇3应助Jasmine采纳,获得30
11秒前
12秒前
Philadelphus发布了新的文献求助10
12秒前
12秒前
13秒前
苻人英发布了新的文献求助10
13秒前
13秒前
qq158014169发布了新的文献求助30
15秒前
乖猫要努力应助千日粉采纳,获得10
17秒前
杨123发布了新的文献求助20
17秒前
17秒前
怂怂鼠完成签到,获得积分10
17秒前
17秒前
zhouyi完成签到,获得积分10
18秒前
老武完成签到,获得积分10
19秒前
南边的海发布了新的文献求助10
19秒前
xxxx完成签到,获得积分10
19秒前
JamesPei应助linjiaying采纳,获得10
20秒前
21秒前
ljy发布了新的文献求助10
21秒前
21秒前
22秒前
高分求助中
A new approach to the extrapolation of accelerated life test data 1000
ACSM’s Guidelines for Exercise Testing and Prescription, 12th edition 500
Picture Books with Same-sex Parented Families: Unintentional Censorship 500
Nucleophilic substitution in azasydnone-modified dinitroanisoles 500
不知道标题是什么 500
A Preliminary Study on Correlation Between Independent Components of Facial Thermal Images and Subjective Assessment of Chronic Stress 500
Phylogenetic study of the order Polydesmida (Myriapoda: Diplopoda) 360
热门求助领域 (近24小时)
化学 材料科学 医学 生物 工程类 有机化学 生物化学 物理 内科学 纳米技术 计算机科学 化学工程 复合材料 遗传学 基因 物理化学 催化作用 冶金 细胞生物学 免疫学
热门帖子
关注 科研通微信公众号,转发送积分 3971333
求助须知:如何正确求助?哪些是违规求助? 3516028
关于积分的说明 11180607
捐赠科研通 3251147
什么是DOI,文献DOI怎么找? 1795693
邀请新用户注册赠送积分活动 875999
科研通“疑难数据库(出版商)”最低求助积分说明 805228