Sugarcane (Saccharum spp.) is an important economic crop, contributing up to 80% of sugar and approximately 60% of biofuel globally. To meet the increased demand for sugar and biofuel supplies, it is critical to breed sugarcane cultivars with robust performance in yield traits. Therefore, dissection of causal DNA sequence variants is of great importance, as it provides genetic resources and fundamental information for crop improvement. In this study, we analyzed nine yield traits in a sugarcane diversity panel consisting of 308 accessions primarily selected from the World Collection of Sugarcane and Related Grasses. By genotyping the diversity panel via target enrichment sequencing, we identified a large number of sequence variants. Genome‐wide association studies between the markers and traits were conducted, taking dosages and gene actions into consideration. In total, 217 nonredundant markers and 225 candidate genes were identified to be significantly associated with the yield traits, which can serve as a comprehensive genetic resource database for future gene identification, characterization, and selection for sugarcane improvement. We further investigated runs of homozygosity (ROH) in the sugarcane diversity panel. We characterized 282 ROHs and found that the occurrence of ROHs in the genome were nonrandom and probably under selection. The ROHs were associated with total weight and dry weight, and high ROHs resulted in a decrease in the two traits. This study suggests that genomic inbreeding has led to negative impacts on sugarcane yield.

中文翻译：

---

多倍体甘蔗（Saccharum spp。）多样性小组中多个产量性状的全基因组关联研究

甘蔗（甘蔗spp。）是重要的经济作物，在全球范围内贡献了80％的糖和大约60％的生物燃料。为了满足对糖和生物燃料供应的不断增长的需求，培育出在产量性状上表现强劲的甘蔗品种至关重要。因此，剖析因果DNA序列变异体非常重要，因为它为作物改良提供了遗传资源和基本信息。在这项研究中，我们分析了甘蔗多样性小组中的9个产量性状，其中包括308种主要选自世界甘蔗及相关草类收藏的材料。通过靶标富集测序对多样性面板进行基因分型，我们鉴定了许多序列变体。考虑到剂量和基因作用，进行了标记和性状之间的全基因组关联研究。总共鉴定出217个非冗余标记和225个候选基因与产量性状显着相关，可以用作将来基因鉴定，表征和选择以改善甘蔗的综合遗传资源数据库。我们进一步调查了甘蔗多样性面板中的纯合性（ROH）运行。我们对282个ROHs进行了鉴定，发现基因组中ROHs的出现是非随机的，可能正在选择中。ROH与总重和干重相关，高ROH导致这两个性状下降。这项研究表明，基因组近交对甘蔗产量产生了负面影响。它可以作为一个综合的遗传资源数据库，用于将来的基因鉴定，表征和选择以改善甘蔗。我们进一步调查了甘蔗多样性面板中的纯合性（ROH）运行。我们对282个ROHs进行了鉴定，发现基因组中ROHs的出现是非随机的，可能正在选择中。ROH与总重和干重相关，高ROH导致这两个性状下降。这项研究表明，基因组近交对甘蔗产量产生了负面影响。它可以作为一个综合的遗传资源数据库，用于将来的基因鉴定，表征和选择以改善甘蔗。我们进一步调查了甘蔗多样性面板中的纯合性（ROH）运行。我们对282个ROHs进行了鉴定，发现基因组中ROHs的出现是非随机的，可能正在选择中。ROH与总重和干重相关，高ROH导致这两个性状下降。这项研究表明，基因组近交对甘蔗产量产生了负面影响。我们对282个ROHs进行了鉴定，发现基因组中ROHs的出现是非随机的，可能正在选择中。ROH与总重和干重相关，高ROH导致这两个性状下降。这项研究表明，基因组近交对甘蔗产量产生了负面影响。我们对282个ROHs进行了鉴定，发现基因组中ROHs的出现是非随机的，可能正在选择中。ROH与总重和干重相关，高ROH导致这两个性状下降。这项研究表明，基因组近交对甘蔗产量产生了负面影响。