Assessment of Complete Plastid Genome Sequences of Tulipa alberti Regel and Tulipa greigii Regel Species from Kazakhstan.

IF 2.8 3区生物学 Q2 GENETICS & HEREDITY Genes Pub Date : 2024-11-09 DOI:10.3390/genes15111447

Shyryn Almerekova, Moldir Yermagambetova, Anna Ivashchenko, Saule Abugalieva, Yerlan Turuspekov

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Abstract

Background: Tulipa species are economically, culturally, scientifically, and ecologically important. Tulips present taxonomic complexities that cannot be adequately resolved by examining their morphological characteristics alone or by relying on a limited selection of genetic markers.

Methods: In the present study, we assessed the complete plastid sequences of Tulipa alberti Regel and Tulipa greigii Regel collected from Kazakhstan. Additionally, 14 previously published plastomes were obtained from GenBank for comparison and phylogenetic analysis.

Results: The plastid genome sizes of T. alberti and T. greigii were 152,359 bp and 152,242 bp, respectively. In the plastid genomes of T. alberti and T. greigii, 136 genes were annotated, 114 of which were unique. These unique genes comprised eighty protein-coding, thirty transfer RNA, and four ribosomal RNA genes. Additionally, 415 simple sequence repeats were identified, comprising 107 tandem, 40 forward, 49 palindromic, 8 reverse, and 1 complementary repeat. Notably, the region containing ycf1 exhibited high variability and may serve as an informative DNA barcode for this genus.

Conclusion: Phylogenetic analysis showed strong support for the relationships among Tulipa species, indicating the utility of plastid genome data for further taxonomic studies within the genus.

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评估哈萨克斯坦 Tulipa alberti Regel 和 Tulipa greigii Regel 品种的完整质体基因组序列。

背景：郁金香物种在经济、文化、科学和生态方面都具有重要意义。郁金香的分类十分复杂，仅靠研究其形态特征或选择有限的遗传标记无法充分解决这一问题：在本研究中，我们评估了从哈萨克斯坦采集的 Tulipa alberti Regel 和 Tulipa greigii Regel 的完整质粒序列。此外，我们还从 GenBank 中获得了 14 个以前发表的质粒体，以进行比较和系统发育分析：alberti 和 T. greigii 的质粒基因组大小分别为 152 359 bp 和 152 242 bp。在阿尔伯蒂褐藻和灰褐藻的质体基因组中，共有 136 个基因被注释，其中 114 个基因是唯一的。这些独特基因包括 80 个蛋白质编码基因、30 个转移 RNA 基因和 4 个核糖体 RNA 基因。此外，还发现了 415 个简单序列重复序列，包括 107 个串联重复序列、40 个正向重复序列、49 个回文重复序列、8 个反向重复序列和 1 个互补重复序列。值得注意的是，包含 ycf1 的区域表现出较高的变异性，可作为该属的 DNA 条形码：系统发育分析表明，郁金香属物种之间的关系得到了强有力的支持，这表明质粒基因组数据可用于该属的进一步分类研究。

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来源期刊

Genes GENETICS & HEREDITY-

CiteScore

5.20

自引率

5.70%

发文量

1975

审稿时长

22.94 days

期刊介绍： Genes (ISSN 2073-4425) is an international, peer-reviewed open access journal which provides an advanced forum for studies related to genes, genetics and genomics. It publishes reviews, research articles, communications and technical notes. There is no restriction on the length of the papers and we encourage scientists to publish their results in as much detail as possible.