Single copy nuclear gene analysis of polyploidy in wild potatoes (Solanum section Petota).
Single copy nuclear gene analysis of polyploidy in wild potatoes (Solanum section Petota).
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DOI：
10.1186/1471-2148-12-70
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发表时间：
2012-05-24
影响因子：
3.4
通讯作者：
Spooner DM
中科院分区：
文献类型：
--
作者：
Cai D;Rodríguez F;Teng Y;Ané C;Bonierbale M;Mueller LA;Spooner DM
最近的基因组研究彻底改变了我们对多倍体进化的认识。野生马铃薯（Solanum section Petota）是一个高度多样化和经济上重要的群体，大约有100种，广泛分布在整个美洲。Petota组36%的种是多倍体或具有二倍体和多倍体细胞型。然而，该群体在基因组水平上知之甚少，该系列是研究多倍体进化的理想选择。利用核同源物GBSSI和硝酸还原酶的两项独立研究证实了马铃薯多倍体起源的先前假设，并显示了以前未提出的新起源。然而，这些研究受到每个多倍体物种使用的资料较少和分类分辨率低的限制，提供了分支特异性的起源，而不是分支内的物种特异性起源。本研究的目的是利用11个多倍体种属的54份材料、29个二倍体种属的34份材料和2个外群的6个核同源物，考察其他多倍体种属的典型现象在野生马铃薯中是否存在，包括多重起源、等位基因缺失或新等位基因的获得。我们的结果提高了分支内的分辨率，对二倍体祖先有了更好的认识，并显示了分支内等位基因共享的意想不到的复杂性。虽然一些物种的多样性与GBSSI和硝酸还原酶结果一致，如S. agrimonifolium、S. colombianum、S. hjertingii和S. moscopanum，但结果对物种特异性祖细胞的分辨率要高得多。然而，其他7个物种表现出等位基因分布的变异模式，表明多重起源和等位基因丢失。hougasii、S. schenckii和S. stoloniferum的10个品种之一都支持复杂的三基因组起源。在来自中美洲的疣状棘球绦虫和来自南美洲的berthaultii棘球绦虫的一个分支中，在6个多倍体物种中出现了非常意想不到的等位基因的共同存在。我们的研究结果记录了一些野生马铃薯多倍体相当大的基因组复杂性。这些可以用多重杂交起源和等位基因丢失来解释，这为野生马铃薯多倍体的分类复杂性提供了明确的生物学解释。这些结果对马铃薯育种者具有理论和实践上的好处，并增加了越来越多的证据，表明多倍体植物一般具有相当的复杂性。
Recent genomic studies have drastically altered our knowledge of polyploid evolution. Wild potatoes (Solanum section Petota) are a highly diverse and economically important group of about 100 species widely distributed throughout the Americas. Thirty-six percent of the species in section Petota are polyploid or with diploid and polyploid cytotypes. However, the group is poorly understood at the genomic level and the series is ideal to study polyploid evolution. Two separate studies using the nuclear orthologs GBSSI and nitrate reductase confirmed prior hypotheses of polyploid origins in potato and have shown new origins not proposed before. These studies have been limited, however, by the use of few accessions per polyploid species and by low taxonomic resolution, providing clade-specific, but not species-specific origins within clades. The purpose of the present study is to use six nuclear orthologs, within 54 accessions of 11 polyploid species, 34 accessions of 29 diploid species of section Petota representing their putative progenitors, and two outgroups, to see if phenomena typical of other polyploid groups occur within wild potatoes, to include multiple origins, loss of alleles, or gain of new alleles. Our results increase resolution within clades, giving better ideas of diploid progenitors, and show unexpected complexity of allele sharing within clades. While some species have little diversity among accessions and concur with the GBSSI and nitrate reductase results, such as S. agrimonifolium, S. colombianum, S. hjertingii, and S. moscopanum, the results give much better resolution of species-specific progenitors. Seven other species, however, show variant patterns of allele distributions suggesting multiple origins and allele loss. Complex three-genome origins are supported for S. hougasii, and S. schenckii, and one of the ten accessions of S. stoloniferum. A very unexpected shared presence of alleles occurs within one clade of S. verrucosum from Central America, and S. berthaultii from South America in six polyploid species S. demissum, S. hjertingii, S. hougasii, S. iopetalum, S. schenckii, and S. stoloniferum. Our results document considerable genomic complexity of some wild potato polyploids. These can be explained by multiple hybrid origins and allele losses that provide a clear biological explanation for the taxonomic complexity in wild potato polyploids. These results are of theoretical and practical benefit to potato breeders, and add to a growing body of evidence showing considerable complexity in polyploid plants in general.
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