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. 2021 Mar 11;6(3):837–839. doi: 10.1080/23802359.2021.1884025

The complete chloroplast genome of Mnium marginatum (With.) P. Beauv.

Shuo Shi a, Shuangling Li a, Shijia Zhang a, Fengjiao Shen a, Jingyuan Niu a,b, Lin Li a,✉, Jiancheng Zhao a,✉
PMCID: PMC7954419  PMID: 33763597

Abstract

Mnium is the type genus of the family Mniaceae, the species’ richest family of order Bryales (Bryophyte). Mnium marginatum is widely distributed worldwide. The complete chloroplast genome of M. marginatum was sequenced by high-throughput sequencing technology. The chloroplast genome is 124,935 bp in length with a quadripartite structure. The two inverted repeat regions are 9,910 bp long and separated by a large single-copy region of 86,572 bp and a small single-copy region of 18,543 bp. Based on the chloroplast genome data of 11 bryophytes downloaded from GenBank and one acquired in this study, phylogenetic trees were constructed.

Keywords: Bryales, Bryaceae, Mniaceae, Mielichhoferiaceae, bryophytes

Family Mniaceae was established by Schwägrichen (1830). It is an important cosmopolitan moss group with many species. However, the family’s circumscription is controversial (Koponen 1981; Vitt 1984; Buck and Goffinet 2000; Frey and Stech 2009). The conflicts were mainly on the clades of Mielichhoferia, Pohlia, and related genera. These genera were transferred to Mniaceae from family Bryaceae and Mielichhoferiaceae (Buck and Goffinet 2000; Frey and Stech 2009). And these changes were supported by studies based on molecular data (Cox et al. 2014; Guerra et al. 2011; Niu et al. 2018). Thus, Mniaceae became the largest family of order Bryales. The relationship between Mniaceae’s genera, such as Mnium, Mielichhoferia, and Pohlia, is unclear and needs further study. The chloroplast genome study of Mnium marginatum will be helpful to reflect the fact of this relationship.

In this study, the complete chloroplast genome of M. marginatum was sequenced and described. Only one chloroplast genome of family Mniaceae, Pohlia cruda (Zhang et al. 2019), was reported before this work. This study will be helpful for further studies of Mniaceae.

Genomic DNA of M. marginatum was extracted from dry leaves by a modified CTAB method (Li et al. 2013). Specimen collected from Xinjiang, China (Haxionggou Forest Park, Urumqi: 87.996°E, 43.832°N) by Jiancheng Zhao, and deposited in HBNU (the herbarium of Hebei Normal University). The collection number of the specimen is Z16823. With a paired-end (PE 150) genomic library acquired by the sequencing platform of Illumina HiSeq (by Nuohezhiyuan Biotech Company, Beijing), the complete chloroplast genome of M. marginatum was assembled with Geneious (Kearse et al. 2012). The sequence was annotated in DOGMA (Wyman et al. 2004) and edited in Sequin version 15.50 (www.ncbi.nlm.nih.gov/Sequin/).

The complete chloroplast DNA sequence of M. marginatum (GenBank accession No. MT897999) is 124,935 bp in length. The two inverted repeat regions (IRs) are 9,910 bp long and separated by a large single-copy (LSC) region of 86,572 bp and a small single-copy (SSC) region of 18,543 bp. It contains 117 unique genes, including 82 protein-coding genes, 31 tRNA genes, and 4 rRNA genes. Eighteen of these 117 genes are intron-containing genes, including six tRNA genes and 12 protein-coding genes. The genes ycf3, clpP, and rps12 each contain two introns, while the other 15 genes each have one intron. The overall G/C content is 29.93%. Moreover, there are 125 simple sequence repeats (SSR) in the chloroplast genome.

The maximum likelihood (ML) tree (Figure 1) was constructed by PhyloSuite version 1.1.14 (Zhang et al. 2020) based on the complete chloroplast genomes of 11 mosses and one liverwort (Marchantia polymorpha, as outgroup). ML phylogenies were inferred using IQ-TREE (Nguyen et al. 2015) under the TVM + R3 + F model for 10,000 ultrafast (Minh et al. 2013) bootstraps, as well as the Shimodaira-Hasegawa-like approximate likelihood-ratio test (Guindon et al. 2010). All sequences were aligned using MAFFT version 7.222 (Katoh and Standley 2013) and manually adjusted with BioEdit version 7.0.9.0 (Alzohairy 2011). In the tree, M. marginatum was the sister group of Pohlia cruda, and most clades were separated with high bootstrap support (100%).

Figure 1.

Figure 1.

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The ML tree is based on 12 chloroplast genome sequences of bryophytes. Numbers on the branches are bootstrap values.

Geolocation information

This study area of this research is in Xinjiang, China.

Acknowledgments

We thank Wenpan Dong & Yanlei Liu for their assistance in data analyses.

Funding Statement

This work was supported by the Youth Foundation of Education Department of Hebei Province under Grant [No. QN2017342, No. QN2018163]; Natural Science Foundation of Hebei Province under Grant [No. C2019205175]; Innovation Funding Program for Graduate Students of Hebei Normal University [No. CXZZSS2021066]; and Innovation Funding Program for Graduate Students of Hebei Province [No. CXZZBS2019088].

Disclosure statement

No potential competing interest was reported by the authors.

Data availability statement

The genome sequence data that support the findings of this study are openly available in GenBank of NCBI at https://www.ncbi.nlm.nih.gov/ under the accession no. MT897999.

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Associated Data

This section collects any data citations, data availability statements, or supplementary materials included in this article.

Data Availability Statement

The genome sequence data that support the findings of this study are openly available in GenBank of NCBI at https://www.ncbi.nlm.nih.gov/ under the accession no. MT897999.

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