title: Leaf margin phenotype-specific restriction-site-associated DNA-derived markers for pineapple (Ananas comosus L.).
abstract: To explore genome-wide DNA polymorphisms and identify DNA markers for leaf margin phenotypes, a restriction-site-associated DNA sequencing analysis was employed to analyze three bulked DNAs of F1 progeny from a cross between a 'piping-leaf-type' cultivar, 'Yugafu', and a 'spiny-tip-leaf-type' variety, 'Yonekura'. The parents were both Ananas comosus var. comosus. From the analysis, piping-leaf and spiny-tip-leaf gene-specific restriction-site-associated DNA sequencing tags were obtained and designated as PLSTs and STLSTs, respectively. The five PLSTs and two STSLTs were successfully converted to cleaved amplified polymorphic sequence (CAPS) or simple sequence repeat (SSR) markers using the sequence differences between alleles. Based on the genotyping of the F1 with two SSR and three CAPS markers, the five PLST markers were mapped in the vicinity of the P locus, with the closest marker, PLST1_SSR, being located 1.5 cM from the P locus. The two CAPS markers from STLST1 and STLST3 perfectly assessed the 'spiny-leaf type' as homozygotes of the recessive s allele of the S gene. The recombination value between the S locus and STLST loci was 2.4, and STLSTs were located 2.2 cM from the S locus. SSR and CAPS markers are applicable to marker-assisted selection of leaf margin phenotypes in pineapple breeding.
authors.affiliation: Okinawa Prefectural Agricultural Research Center , 820 Makabe, Itoman, Okinawa 901-0336 , Japan.
authors.forename: Naoya
authors.initials: N
authors.lastname: Urasaki
authors.affiliation: Okinawa Prefectural Agricultural Research Center , 820 Makabe, Itoman, Okinawa 901-0336 , Japan.
authors.forename: Satoko
authors.initials: S
authors.lastname: Goeku
authors.affiliation: Okinawa Prefectural Agricultural Research Center , 820 Makabe, Itoman, Okinawa 901-0336 , Japan.
authors.forename: Risa
authors.initials: R
authors.lastname: Kaneshima
authors.affiliation: Okinawa Prefectural Institute of Health and Environment , 2085 Oozato, Nanjyo, Okinawa 901-1202 , Japan.
authors.forename: Tomonori
authors.initials: T
authors.lastname: Takamine
authors.affiliation: Okinawa Prefectural Agricultural Research Center , 820 Makabe, Itoman, Okinawa 901-0336 , Japan.
authors.forename: Kazuhiko
authors.initials: K
authors.lastname: Tarora
authors.affiliation: Okinawa Prefectural Agricultural Research Center, Nago Branch , 4605-3 Nago, Nago, Okinawa 905-0012 , Japan.
authors.forename: Makoto
authors.initials: M
authors.lastname: Takeuchi
authors.affiliation: Okinawa Prefectural Agricultural Research Center, Nago Branch , 4605-3 Nago, Nago, Okinawa 905-0012 , Japan.
authors.forename: Chie
authors.initials: C
authors.lastname: Moromizato
authors.affiliation: Okinawa Prefectural Agricultural Research Center, Nago Branch , 4605-3 Nago, Nago, Okinawa 905-0012 , Japan.
authors.forename: Kaname
authors.initials: K
authors.lastname: Yonamine
authors.affiliation: NARO Institute of Fruit Tree Science , 2-1 Fujimoto, Tsukuba, Ibaraki 305-8605 , Japan.
authors.forename: Fumiko
authors.initials: F
authors.lastname: Hosaka
authors.affiliation: NARO Institute of Fruit Tree Science , 2-1 Fujimoto, Tsukuba, Ibaraki 305-8605 , Japan.
authors.forename: Shingo
authors.initials: S
authors.lastname: Terakami
authors.affiliation: Gene Research Center, Shinshu University , 3-15-1 Tokida, Ueda, Nagano 386-8567 , Japan.
authors.forename: Hideo
authors.initials: H
authors.lastname: Matsumura
authors.affiliation: NARO Institute of Fruit Tree Science , 2-1 Fujimoto, Tsukuba, Ibaraki 305-8605 , Japan.
authors.forename: Toshiya
authors.initials: T
authors.lastname: Yamamoto
authors.affiliation: Okinawa Prefectural Agricultural Research Center, Nago Branch , 4605-3 Nago, Nago, Okinawa 905-0012 , Japan.
authors.forename: Moriyuki
authors.initials: M
authors.lastname: Shoda
keywords: CAPS; RAD-seq; SSR; leaf margin phenotype; pineapple (Ananas comosus)