Theoretical and Applied Genetics

, Volume 131, Issue 2, pp 253–265 | Cite as

Molecular characterization of NBSLRR genes in the soybean Rsv3 locus reveals several divergent alleles that likely confer resistance to the soybean mosaic virus

  • Fang-Fang Ma
  • Mian Wu
  • Ying-Na Liu
  • Xue-Ying Feng
  • Xun-Zong Wu
  • Jian-Qun ChenEmail author
  • Bin WangEmail author
Original Article


Key message

The divergence patterns of NBS LRR genes in soybean Rsv3 locus were deciphered and several divergent alleles ( NBS_C, NBS_D and Columbia NBS_E ) were identified as the likely functional candidates of Rsv3.


The soybean Rsv3 locus, which confers resistance to the soybean mosaic virus (SMV), has been previously mapped to a region containing five nucleotide binding site–leucine-rich repeats (NBSLRR) genes (referred to as nbs_AE) in Williams 82. In resistant cultivars, however, the number of NBSLRR genes in this region and their divergence from susceptible alleles remain unclear. In the present study, we constructed and screened a bacterial artificial chromosome (BAC) library for an Rsv3-possessing cultivar, Zaoshu 18. Sequencing two positive BAC inserts on the Rsv3 locus revealed that Zaoshu 18 possesses the same gene content and order as Williams 82, but two of the NBSLRR genes, NBS_C and NBS_D, exhibit distinct features that were not observed in the Williams 82 alleles. Obtaining these NBS-LRR genes from eight additional cultivars demonstrated that the NBS_AD genes diverged into two different alleles: the nbs_AD alleles were associated with the rsv3-type cultivars, whereas the NBS_AD alleles were associated with the Rsv3-possessing cultivars. For the NBS_E gene, the cultivar Columbia possesses an allele (NBS_E) that differed from that in Zaoshu 18 and rsv3-type cultivars (nbs_E). Exchanged fragments were further detected on alleles of the NBS_CE genes, suggesting that recombination is a major force responsible for allele divergence. Also, the LRR domains of the NBS_CE genes exhibited extremely strong signals of positive selection. Overall, the divergence patterns of the NBSLRR genes in Rsv3 locus elucidated by this study indicate that not only NBS_C but also NBS_D and Columbia NBS_E are likely functional alleles that confer resistance to SMV.



Many thanks are given to Dr. D. X. Li of Northwest Agriculture and Forest University for providing seeds of soybean cultivars used in this study. We thank LetPub ( for its linguistic assistance during the preparation of this manuscript. This research was financed by National Natural Science Foundation of China (31470327 and 31570217).

Compliance with ethical standards

Conflict of interest

The authors have no conflicts of interest to declare.

Supplementary material

122_2017_2999_MOESM1_ESM.docx (56 kb)
Supplementary material 1 (DOCX 55 kb)
122_2017_2999_MOESM2_ESM.fas (181 kb)
Supplementary material 2 (FAS 180 kb) Table S2. The aligned coding sequences of NBS_A to NBS_E genes from ten investigated soybean cultivars. (The file is in fasta format)


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Copyright information

© Springer-Verlag GmbH Germany 2017

Authors and Affiliations

  1. 1.Laboratory of Plant Genetics and Molecular Evolution, School of Life SciencesNanjing UniversityNanjingChina

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