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Molecules 2017, 22(11), 1875; doi:10.3390/molecules22111875

The Complete Amomum kravanh Chloroplast Genome Sequence and Phylogenetic Analysis of the Commelinids

1,2
,
3
,
1
,
2,* and 1,2,*
1
Pharmacy Faculty, Hubei University of Chinese Medicine, Wuhan 430065, Hubei, China
2
Institute of Chinese Materia Medica, China Academy of Chinese Medical Sciences, Beijing 100700, China
3
Department of Pharmacy, Changzheng Hospital, Second Military Medical University, Shanghai 200003, China
*
Authors to whom correspondence should be addressed.
Received: 22 September 2017 / Revised: 28 October 2017 / Accepted: 30 October 2017 / Published: 1 November 2017
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Abstract

Amomum kravanh is an important edible and medicinal herb, the dried fruits of which are widely used in traditional herbal medicine as cardamom. We sequenced and analyzed the complete chloroplast (cp) genome of A. kravanh with herbgenomics technologies. The size of the A. kravanh cp genome was 162,766 bp, which consisted of long (LSC; 87,728 bp) and short (SSC; 15,390 bp) single-copy regions, separated by a pair of inverted repeats (IRs; 29,824 bp). The genome encoded 114 unique genes, including 80 protein-coding genes, 30 tRNAs and four rRNAs. A total of 299 simple sequence repeats (SSRs) were identified in the A. kravanh cp genome, which provides an effective method to study species identification and population genetics of the medicinal plant. Moreover, one complement, 12 forward, 12 palindrome and two reverse repeats were detected. Comparative cp genome sequence analysis of four Zingiberaceae species indicated that their intergenic spacers are highly divergent, although the gene order, gene content and genome structure differed only minimally. In particular, there was a remarkable expansion of the IR regions in the A. kravanh cp genome. Phylogenetic analysis strongly supported a sister relationship between A. kravanh and Alpinia zerumbet. This study identified the unique characteristics of the A. kravanh cp genome and might provide valuable information for future studies aiming for Amomum identification, and provide insights into the taxonomy of the commelinids. View Full-Text
Keywords: Amomum kravanh; chloroplast genome; phylogenetic; cardamom; commelinids Amomum kravanh; chloroplast genome; phylogenetic; cardamom; commelinids
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Wu, M.; Li, Q.; Hu, Z.; Li, X.; Chen, S. The Complete Amomum kravanh Chloroplast Genome Sequence and Phylogenetic Analysis of the Commelinids. Molecules 2017, 22, 1875.

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