Department of Biological Sciences, Louisiana State University, 202 Life Sciences Building, Baton Rouge, LA 70803, USA.
Institute for Systems Biology, Seattle, WA 98109, USA.
Genes (Basel). 2022 Mar 24;13(4):572. doi: 10.3390/genes13040572.
Capuchins are platyrrhines (monkeys found in the Americas) within the Cebidae family. For most of their taxonomic history, the two main morphological types of capuchins, gracile (untufted) and robust (tufted), were assigned to a single genus, . Further, all tufted capuchins were assigned to a single species, , despite broad geographic ranges spanning Central and northern South America. In 2012, tufted capuchins were assigned to their genus, , with eight currently recognized species and five species, although these numbers are still under debate. retrotransposons are a class of mobile element insertion (MEI) widely used to study primate phylogenetics. However, elements have rarely been used to study capuchins. Recent genome-level assemblies for capuchins (; [Cebus_imitator_1.0] and [GSC_monkey_1.0]) facilitated large scale ascertainment of young lineage-specific insertions. Reported here are 1607 capuchin specific and 678 specific insertions along with candidate oligonucleotides for locus-specific PCR assays for many elements. PCR analyses identified 104 genus level and 51 species level insertion polymorphisms. The datasets reported in this study provide a valuable resource that will assist in the classification of archival samples lacking phenotypic data and for the study of capuchin phylogenetic relationships.
卷尾猴属于阔鼻猴亚目（新大陆猴），卷尾猴科。在其大部分分类历史中，两种主要的卷尾猴形态类型，纤细（无簇毛）和粗壮（有簇毛），被归入同一个属， 。此外，所有有簇毛的卷尾猴都被归入同一个物种， ，尽管它们的地理分布范围很广，横跨中美洲和南美洲北部。2012 年，有簇毛的卷尾猴被归入它们的属， ，目前有 8 个被认可的物种和 5 个亚种，尽管这些数字仍存在争议。逆转录转座子是一类广泛用于研究灵长类动物系统发育的移动元件插入（MEI）。然而，逆转录转座子很少被用于研究卷尾猴。最近的卷尾猴基因组水平组装（ ；[Cebus_imitator_1.0]和 [GSC_monkey_1.0]）促进了大规模鉴定年轻的谱系特异性 插入。本文报道了 1607 个卷尾猴特异性和 678 个特异性插入，以及许多元件的基因座特异性 PCR 检测的候选寡核苷酸。PCR 分析鉴定了 104 个属水平和 51 个种水平的 插入多态性。本研究中报告的数据集为分类缺乏表型数据的档案样本提供了有价值的资源，并有助于研究卷尾猴的系统发育关系。
