Dipteryx alata Vog. (Fabaceae) is a species of tree native to the Brazilian Cerrado that has economic potential due to its use for food, forage, medicinal, recovery of degraded areas, landscaping and wood extraction. The objective of the present study was to sequence, assemble and annotate the chloroplast genome sequence (cp genome) of D. alata and perform comparative analysis with the cp genome of other species of Fabaceae. The chloroplast is 158,647 bp in length and exhibits a quadripartite structure, with a pair of inverted repeats (IRs: 24,948 bp) separated by the large single copy (LSC: 88,769 bp) and small single copy (SSC: 19,982 bp) regions. It contains 125 genes, of which 109 are unique, including 76 protein-coding genes (CDS), 29 transporter RNA genes (tRNA) and four ribosomal RNA genes (rRNA). Comparative analysis of the cp genome of D. alata with the genome of other Fabaceae indicated similarity to the gene content, but gene losses and rearrangements have been identified. Comparative analysis indicated that the genes located in the IR regions were the most conserved, with average values of nucleotide diversity (Pi) of 0.03 followed by SSC (Pi-0.08) and LSC (Pi-0.09). Some non-coding regions exhibited relatively high divergence of sequences. The chloroplast genome contains also 131 simple sequence repeats (SSRs) of which 121 are located in intergenic regions and ten in protein-coding regions. The most frequent SSR repetition was A/T and AT/TA. The complete cp genome sequence of D. alata reported in this paper represents a valuable addition to the scarce available genomic resources for this Brazilian Cerrado species. This work shows the first complete plastoma of a species belonging to the ADA clade, within the Papilionoideae subfamily, and contributes to improve studies of phylogeny and plastoma evolution of the Fabaceae family. In addition, it provides new genetic information on plastid sequences useful for designing conservation and breeding strategies. Chloroplast sequences will be useful in phylogenetic studies, population genetics, phylogeography and molecular systematics.

中文翻译：

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Dipteryx alata Vog 的叶绿体基因组序列。（豆科：凤蝶科）：基因组特征以及与其他豆科植物基因组的比较分析

Dipteryx alata Vog。（豆科）是一种原产于巴西塞拉多的树种，因其可用于食物、饲料、药用、退化地区的恢复、景观美化和木材开采而具有经济潜力。本研究的目的是对 D. alata 的叶绿体基因组序列（cp 基因组）进行测序、组装和注释，并与其他豆科植物的 cp 基因组进行比较分析。叶绿体长度为 158,647 bp，呈四分体结构，一对反向重复（IR：24,948 bp）被大单拷贝（LSC：88,769 bp）和小单拷贝（SSC：19,982 bp）区域隔开。它包含125个基因，其中109个是独特的，包括76个蛋白质编码基因（CDS）、29个转运RNA基因（tRNA）和4个核糖体RNA基因（rRNA）。D. cp 基因组的比较分析。alata 与其他豆科植物的基因组表明基因含量相似，但已经确定了基因丢失和重排。比较分析表明，位于IR区域的基因最保守，核苷酸多样性平均值（Pi）为0.03，其次是SSC（Pi-0.08）和LSC（Pi-0.09）。一些非编码区表现出相对较高的序列差异。叶绿体基因组还包含 131 个简单序列重复 (SSR)，其中 121 个位于基因间区域，10 个位于蛋白质编码区域。最频繁的 SSR 重复是 A/T 和 AT/TA。本文报道的 D. alata 的完整 cp 基因组序列代表了这种巴西 Cerrado 物种稀缺的可用基因组资源的宝贵补充。这项工作展示了属于 ADA 进化枝的一个物种的第一个完整的质体，属于蝶形亚科，有助于改进豆科家族的系统发育和质体进化的研究。此外，它还提供了有关质体序列的新遗传信息，可用于设计保护和育种策略。叶绿体序列将用于系统发育研究、群体遗传学、系统地理学和分子系统学。