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<p>Lejeuneaceae, one of the most well-known families in liverworts for their high species diversity and morphological variation, represents an ideal group for studying genomic evolution during adaptation to the epiphytic environment. However, the genomic resource of this family is still limited. Here, we reported two newly sequenced chloroplast genomes of this group, one from <i>Caudalejeunea reniloba</i> (Gottsche) Steph and the other from <i>Cheilolejeunea xanthocarpa</i> (Lehm. &amp; Lindenb.) Malombe. We conducted a comparative analysis with eight previously reported plastomes in this family. The plastomes of <i>C. reniloba</i> and <i>C. xanthocarpa</i> have a length of 117,322&#xa0;bp with GC content 31.4% and 117,158&#xa0;bp with GC content 30.5%, respectively. The plastomes of Lejeuneaceae were relativley small and have structural conservation. The GC content varied little among plastomes, but it differed greatly across the genomes and among major clades of bryophytes. The genetic variation of this feature was negatively correlated with nucleotide diversity, while unlinked with gene length. We also recovered some other important characteristics, including 23–50 repeated sequences, 4–17 tandem repeats, 25–37 simple sequence repeats (SSRs). Nearly half of 64 codons have a relative synonymous codon usage of &gt; 1. Finally, we generated a well-resolved phylogeny of Lejeuneaceae using all protein-coding genes, highlighting the great operability of using the complete chloroplast genome to resolve the complex phylogenetic relationships in this family. This study not only shed lights into the evolution of plastomes in Lejeuneaceae, but also provides valuable resources for future studies on its population genetics, phylogeny, and biogeography.</p>

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The complete chloroplast genomes of two Lejeuneaceae (Marchantiophyta) species and a comparative genomic analysis

  • 期刊论文

  • 发表日期：

    2025年9月22日

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  • Ying Yu,
  • Wen-Zhang Ma,
  • Mei-Ying Fan,
  • Hong-Xia Zhou,
  • Yue-Qin Song

摘要

Lejeuneaceae, one of the most well-known families in liverworts for their high species diversity and morphological variation, represents an ideal group for studying genomic evolution during adaptation to the epiphytic environment. However, the genomic resource of this family is still limited. Here, we reported two newly sequenced chloroplast genomes of this group, one from Caudalejeunea reniloba (Gottsche) Steph and the other from Cheilolejeunea xanthocarpa (Lehm. & Lindenb.) Malombe. We conducted a comparative analysis with eight previously reported plastomes in this family. The plastomes of C. reniloba and C. xanthocarpa have a length of 117,322 bp with GC content 31.4% and 117,158 bp with GC content 30.5%, respectively. The plastomes of Lejeuneaceae were relativley small and have structural conservation. The GC content varied little among plastomes, but it differed greatly across the genomes and among major clades of bryophytes. The genetic variation of this feature was negatively correlated with nucleotide diversity, while unlinked with gene length. We also recovered some other important characteristics, including 23–50 repeated sequences, 4–17 tandem repeats, 25–37 simple sequence repeats (SSRs). Nearly half of 64 codons have a relative synonymous codon usage of > 1. Finally, we generated a well-resolved phylogeny of Lejeuneaceae using all protein-coding genes, highlighting the great operability of using the complete chloroplast genome to resolve the complex phylogenetic relationships in this family. This study not only shed lights into the evolution of plastomes in Lejeuneaceae, but also provides valuable resources for future studies on its population genetics, phylogeny, and biogeography.