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格罗斯蜗牛 Cepaea nemoralis 的基因组草图序列。

The draft genome sequence of the grove snail Cepaea nemoralis.

机构信息

Evolutionary Ecology, Naturalis Biodiversity Center, Leiden 2333CR, the Netherlands.

Animal Sciences, Institute of Biology Leiden, Leiden University, Leiden 2333BE, the Netherlands.

出版信息

G3 (Bethesda). 2021 Feb 9;11(2). doi: 10.1093/g3journal/jkaa071.

Abstract

Studies on the shell color and banding polymorphism of the grove snail Cepaea nemoralis and the sister taxon Cepaea hortensis have provided compelling evidence for the fundamental role of natural selection in promoting and maintaining intraspecific variation. More recently, Cepaea has been the focus of citizen science projects on shell color evolution in relation to climate change and urbanization. C. nemoralis is particularly useful for studies on the genetics of shell polymorphism and the evolution of "supergenes," as well as evo-devo studies of shell biomineralization, because it is relatively easily maintained in captivity. However, an absence of genomic resources for C. nemoralis has generally hindered detailed genetic and molecular investigations. We therefore generated ∼23× coverage long-read data for the ∼3.5 Gb genome, and produced a draft assembly composed of 28,537 contigs with the N50 length of 333 kb. Genome completeness, estimated by BUSCO using the metazoa dataset, was 91%. Repetitive regions cover over 77% of the genome. A total of 43,519 protein-coding genes were predicted in the assembled genome, and 97.3% of these were functionally annotated from either sequence homology or protein signature searches. This first assembled and annotated genome sequence for a helicoid snail, a large group that includes edible species, agricultural pests, and parasite hosts, will be a core resource for identifying the loci that determine the shell polymorphism, as well as in a wide range of analyses in evolutionary and developmental biology, and snail biology in general.

摘要

有关树蜗牛 Cepaea nemoralis 和姐妹分类群 Cepaea hortensis 的壳色和带纹多态性的研究为自然选择在促进和维持种内变异方面的基本作用提供了有力证据。最近,Cepaea 成为了与气候变化和城市化有关的壳色进化的公民科学项目的焦点。C. nemoralis 特别有助于研究壳多态性的遗传学和“超级基因”的进化,以及壳生物矿化的演化与发育研究,因为它在人工饲养中相对容易维持。然而,C. nemoralis 缺乏基因组资源通常阻碍了详细的遗传和分子研究。因此,我们为 ∼3.5Gb 基因组生成了 ∼23×覆盖的长读数据,并产生了一个由 28,537 个 contigs 组成的草稿组装,N50 长度为 333kb。使用 metazoa 数据集估算的基因组完整性为 91%。重复区域覆盖了基因组的 77%以上。在组装的基因组中预测了总共 43,519 个蛋白质编码基因,其中 97.3%的基因通过序列同源性或蛋白质特征搜索进行了功能注释。这是第一个组装和注释的螺旋蜗牛基因组,螺旋蜗牛是一个包含可食用物种、农业害虫和寄生虫宿主的大群体,它将成为确定壳多态性的基因座的核心资源,也将成为进化和发育生物学以及一般蜗牛生物学中广泛分析的核心资源。

https://cdn.ncbi.nlm.nih.gov/pmc/blobs/6fe0/8022989/d4157f558949/jkaa071f1.jpg

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