Draft genome of Puya raimondii (Bromeliaceae), the Queen of the Andes

Lu Liu, Liscely Tumi, Mery L. Suni, Monica Arakaki, Zheng Feng Wang, Xue Jun Ge

Research output: Contribution to journalArticlepeer-review

Abstract

Puya raimondii, the Queen of the Andes, is an endangered high Andean species in the Bromeliaceae family. Here, we report its first genome to promote its conservation and evolutionary study. Comparative genomics showed P. raimondii diverged from Ananas comosus about 14.8 million years ago, and the long terminal repeats were likely to contribute to the genus diversification in last 3.5 million years. The gene families related to plant reproductive development and stress responses significantly expanded in the genome. At the same time, gene families involved in disease defense, photosynthesis and carbohydrate metabolism significantly contracted, which may be an evolutionary strategy to adapt to the harsh conditions in high Andes. The demographic history analysis revealed the P. raimondii population size sharply declined in the Pleistocene and then increased in the Holocene. We also designed and tested 46 pairs of universal primers for amplifying orthologous single-copy nuclear genes in Puya species.

Original languageEnglish
Pages (from-to)2537-2546
Number of pages10
JournalGenomics
Volume113
Issue number4
DOIs
StatePublished - Jul 2021

Bibliographical note

Funding Information:
We thank Prof. Asunci?n Cano for field assistance and species identification and to SERFOR - Ministry of Agriculture of Peru for issuing the Collection Permit Nos: 282-2017, 140-2017, 043-2018, and 436-2018. Dr. Yu-Qu Zhang helped with sample collection. This study was financially supported by the ?Belt and Road? Program of Chinese Academy of Sciences (Grant No. 151853KYSB20190027), and the Strategic Priority Research Program of Chinese Academy of Sciences (Grant No. XDB31000000). The authors would like to thank TopEdit (www.topeditsci.com) for its linguistic assistance during the preparation of this manuscript.

Funding Information:
We thank Prof. Asunción Cano for field assistance and species identification and to SERFOR - Ministry of Agriculture of Peru for issuing the Collection Permit Nos: 282-2017, 140-2017, 043-2018, and 436-2018. Dr. Yu-Qu Zhang helped with sample collection. This study was financially supported by the “Belt and Road” Program of Chinese Academy of Sciences (Grant No. 151853KYSB20190027 ), and the Strategic Priority Research Program of Chinese Academy of Sciences (Grant No. XDB31000000 ). The authors would like to thank TopEdit ( www.topeditsci.com ) for its linguistic assistance during the preparation of this manuscript.

Publisher Copyright:
© 2021 Elsevier Inc.

Keywords

  • Comparative genomics
  • Draft genome
  • Gene families
  • Puya raimondii
  • Single-copy nuclear genes

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