Genomic insight into the developmental history of southern highbush blueberry populations
Genomic insight into the developmental history of southern highbush blueberry populations
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DOI：
10.1038/s41437-020-00362-0
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发表时间：
2020-09-01
期刊：
影响因子：
3.8
通讯作者：
Tao, Ryutaro
中科院分区：
文献类型：
--
作者：
Nishiyama, Soichiro;Fujikawa, Mao;Tao, Ryutaro
种间杂交是将新性状和遗传多样性引入育种群体的常用育种方法。南方高丛蓝莓（SHB）是一个蓝莓品种群，在过去的60年里一直在密集育种。具体地说，它是通过北方高丛蓝莓[NHB，Vaccinium corymbosumL. (2n= 4x = 48）]和低冷越桔品种，以扩大高丛蓝莓生产的地理限制。在这项研究中，我们的基因型多倍体蓝莓，包括105 SHB，17 NHB，和10兔眼蓝莓（RE）（越桔virgatumAiton），从加入种植在白杨，密西西比，并加入分布在日本，基于双消化限制性内切酶位点相关的DNA测序。全基因组SNP数据清楚地表明，RE品种从SHB和NHB品种的遗传不同，而NHB和SHB的遗传无法区分。群体结构的结果似乎反映了育种者用于开发适应当地气候的种质的等位基因选择策略的差异。基因型数据表明，没有或很少有基因组片段通常从低冷牛痘种渗入到SHB基因组中。基于主成分分析的离群值检测分析发现，一些位点与一个变量，可以部分区分NHB和SHB。这些SNP位点在Mb级单倍型块中检测到，可能与SHB发生相关的功能基因接近。总的来说，本研究中产生的数据表明，SHB对南方气候的多基因适应，可能与未来蓝莓的群体规模全基因组分析有关。
Interspecific hybridization is a common breeding approach for introducing novel traits and genetic diversity to breeding populations. Southern highbush blueberry (SHB) is a blueberry cultivar group that has been intensively bred over the last 60 years. Specifically, it was developed by multiple interspecific crosses between northern highbush blueberry [NHB,Vaccinium corymbosumL. (2n = 4x = 48)] and low-chillVacciniumspecies to expand the geographic limits of highbush blueberry production. In this study, we genotyped polyploid blueberries, including 105 SHB, 17 NHB, and 10 rabbiteye blueberry (RE) (Vaccinium virgatumAiton), from the accessions planted at Poplarville, Mississippi, and accessions distributed in Japan, based on the double-digest restriction site-associated DNA sequencing. The genome-wide SNP data clearly indicated that RE cultivars were genetically distinct from SHB and NHB cultivars, whereas NHB and SHB were genetically indistinguishable. The population structure results appeared to reflect the differences in the allele selection strategies that breeders used for developing germplasm adapted to local climates. The genotype data implied that there are no or very few genomic segments that were commonly introgressed from low-chillVacciniumspecies to the SHB genome. Principal component analysis-based outlier detection analysis found a few loci associated with a variable that could partially differentiate NHB and SHB. These SNP loci were detected in Mb-scale haplotype blocks and may be close to the functional genes related to SHB development. Collectively, the data generated in this study suggest a polygenic adaptation of SHB to the southern climate, and may be relevant for future population-scale genome-wide analyses of blueberry.