A High‐Density Soybean Genetic Map Based on AFLP Markers

Abstract

Genetic marker systems have improved dramatically in the past 10 yr. Each new system needs to be evaluated for its distribution of markers on genetic linkage maps to validate its use for genetic analysis. The resulting maps are also useful for establishing the genetic positions of genes affecting important phenotypes. We have constructed a high density map in soybean [Glycine max (L.) Merr.] using a 300 RIL (recombinant inbred line) population from BSR‐101 × PI437.654 by first constructing an RFLP (restriction fragment length polymorphism) “scaffold” map based on the entire population. The RFLP anchored map was then further populated with AFLP (amplified fragment length polymorphism) markers based on only a 42 RIL subset. We report here an 840 marker map consisting of 165 RFLP, 25 RAPD (random amplified polymorphic DNA), and 650 AFLP markers spread over 28 linkage groups representing 3441 cM distance. Although clustering of AFLP markers occurred, markers were mapped to every linkage group and were well distributed relative to other marker systems. The AFLP marker system appears to be a useful approach for generating high density genetic maps in soybean.

National Science Foundation-Sponsored Workshop Report. Draft Plan for Soybean Genomics

“…In spite of its polyploid origin, the soybean composite genetic map is well developed. The classical map contains only 67 loci on 19 linkage groups (Hedges and Palmer, 1993) (Mansur et al, 1996); a University of Nebraska population derived from Clark 3 Harosoy (Shoemaker and Specht, 1995); a USDA/ Iowa State University population, an F2-derived mapping population from A81-356022 (G. max) 3 PI468.916 (G. soja), with 59 F2 plant derivatives (Shoemaker and Olson, 1993;Shoemaker and Specht, 1995;Keim et al, 1996) Marek and Shoemaker, 1997;Danesh et al, 1998;Tomkins et al, 1999;Meksem et al, 2000 The soybean genome comprises about 1.1 Mb/Cvalue (Arumuganathan and Earle, 1991). This makes it about seven and one-half times larger than the genome of Arabidopsis but less than one-half the size of the maize genome (Arumuganathan and Earle, 1991).…”

A SNP-Based Genetic Linkage Map of Soybean Using the SoyS - NP6K Illumina Infinium BeadChip Genotyping Array

“…To date, random amplified polymorphic DNA (RAPD), restriction fragment length polymorphisms (RFLP), amplified fragment length polymorphism (AFLP), simple sequence repeat (SSR), and single nucleotide polymorphism (SNP) markers have been used to construct genetic linkage maps and a consensus map in soybean using many different mapping populations (Shoemaker et al, 1995;Lark et al, 1995;Keim et al, 1997;Song et al, 2004;Cregan et al, 1999;Song et al, 2004;Kassem et al, 2006Kassem et al, , 2012Choi et al, 2007;Hyten et al, 2010).…”

Distinction between Cold-sensitive and -tolerant Jute by DNA Polymorphisms

“…AFLP has been used to examine the genetic relationships among other crop species. These include potato (van Eck et al, 1995), lettuce (Hill et al, 1996), rice (Cho et al, 1996), barley (Powell et al, 1997), soybean (Keim et al, 1997), maize (Vuylsteke et al, 1999), eggplant (Mace et al, 1999), and sunflower (Quagliaro et al, 2001). Previous studies showed that an AFLP analysis has greater discriminatory power than a RAPD analysis and other genomic fingerprinting methods.…”