A Simple Sequence Repeat- and Single-Nucleotide Polymorphism-Based Genetic Linkage Map of the Brown Planthopper, Nilaparvata lugens

Abstract

In this study, we developed the first genetic linkage map for the major rice insect pest, the brown planthopper (BPH, Nilaparvata lugens). The linkage map was constructed by integrating linkage data from two backcross populations derived from three inbred BPH strains. The consensus map consists of 474 simple sequence repeats, 43 single-nucleotide polymorphisms, and 1 sequence-tagged site, for a total of 518 markers at 472 unique positions in 17 linkage groups. The linkage groups cover 1093.9 cM, with an average distance of 2.3 cM between loci. The average number of marker loci per linkage group was 27.8. The sex-linkage group was identified by exploiting X-linked and Y-specific markers. Our linkage map and the newly developed markers used to create it constitute an essential resource and a useful framework for future genetic analyses in BPH.

Genetic mapping of the rice resistance-breaking gene of the brown planthopper Nilaparvata lugens

“…Genotyping of 92 published SSR markers and 191 SNP markers in the BF 1 population connected our new linkage map to the published map successfully [25] (electronic supplementary material, table S4). Linkage groups 16 and 17 in the paper were merged to our linkage groups 9 and 15, respectively.…”

“…To identify the linkage groups corresponding to the 17 linkage groups of BPH [25], 92 simple sequence repeat (SSR)…”

Chromosomal Location of a Recessive Red-Eye Mutant Gene in the Brown Planthopper <i>Nilaparvata lugens</i> (Stål) (Insecta: Hemiptera)

“…Based on the presence of eye color of the BPH, we generated two groups of 29 brown-eyed (B) and 29 red-eyed (R) progenies from the F 2 population. A total of 387 SSR markers from Jairin et al [9] and Jing et al [10] covering 14 chromosomes of the BPH were selected to identify the R and B groups. The genetic linkage map was calculated by Join Map 4 [15] using genotype data from 95 F 2 individuals derived from crosses of KLS13/KBI13.…”

“…Numerous DNA markers were developed [9] [10] that made it possible to identify and map some genes in the BPH through linkage to existing DNA markers [10] [11]. In the present study, bulked segregant analysis (BSA) [12] with SSR markers was used to detect and locate the chromosomal location of the red gene controlling the red eye mutation in the BPH.…”

Isolation, characterization, and cross-transferability of microsatellite markers from the whitebacked planthopper (Sogatella furcifera)

“…Previously, the genetic basis for wing dimorphism was studied, and an internal transcribed spacer of the ribosomal RNA and cox sequences of the mitochondrion were used to distinguish regional populations (Matsumura, 1996;Fu et al, 2012;Matsumoto et al, 2013). In two other planthoppers, the smaller brown planthopper Laodelphax striatellus, and the brown planthopper, Nilaparvata lugens, many molecular markers have been used to study the population ecology and evolution, but none have been used to study S. furcifera (Jing et al, 2012a,b;Sun et al, 2012;Jairin et al, 2013). Microsatellites, also known as simple sequence repeats (SSRs), which are typically highly polymorphic, remain the most popular markers in population genetic studies (Guichoux et al, 2011).…”