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Genome-Wide Identification and Characterization of Nucleotide-Binding Site (NBS) Resistance Genes in Pineapple

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Abstract

Pineapple is a major tropical fruit and the most important crop processing CAM photosynthesis. It originated in southwest Brazil and northeast Paraguay and survived the harsh, semi-arid environment. Disease resistance genes have contributed to the survival and thriving of this species. The largest class of disease resistance (R) genes in plants consists of genes encoding nucleotide-binding site (NBS) domains. The sequenced genome of pineapple (Ananas comosus (L.) Merr.) provides a resource for analyzing the NBS-encoding genes in this species. A total of 177 NBS-encoding genes were identified using automated and manual analysis criteria, and these represent about 0.6 % of the total number of predicted pineapple genes. Five genes identified here contained the N-terminal Toll/Interleukin-l receptor (TIR) domain, and 46 genes carried the N-terminal Coiled-Coil (CC) motif. A majority of these NBS-encoding genes (84 %) contained a leucine-rich repeat (LRR) domain. A total of 130 of 177 (73 %) of these NBS-encoding genes were distributed across 20 pineapple linkage groups. The identification and characterization of NBS genes in pineapple yielded a valuable genomic resource and improved understanding of R genes in pineapple, which will facilitate the development of disease resistant pineapple cultivars.

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Abbreviations

NBS:

Nucleotide-binding site

TIR:

N-terminal Toll/Interleukin-l receptor

CC:

Coiled-Coil

LRR:

Leucine-rich repeat

R:

Resistance

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Acknowledgments

We thank Zhenyang Liao and Jingping Fang for providing bioinformatics technical assistance. This work was supported by Fujian Agriculture and Forestry University startup fund to RM.

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Authors and Affiliations

  1. FAFU and UIUC-SIB Joint Center for Genomics and Biotechnology, Fujian Agriculture and Forestry University, Fuzhou, 350002, China

    Xiaodan Zhang, Pingping Liang & Ray Ming

  2. Department of Plant Biology, University of Illinois at Urbana-Champaign, Urbana, IL, 61801, USA

    Ray Ming

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  1. Xiaodan Zhang
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  2. Pingping Liang
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  3. Ray Ming
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Correspondence to Ray Ming.

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Communicated by: Paulo Arruda

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Zhang, X., Liang, P. & Ming, R. Genome-Wide Identification and Characterization of Nucleotide-Binding Site (NBS) Resistance Genes in Pineapple. Tropical Plant Biol. 9, 187–199 (2016). https://doi.org/10.1007/s12042-016-9178-z

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  • DOI: https://doi.org/10.1007/s12042-016-9178-z

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