Diversity and distribution of indigenous soybean-nodulating rhizobia in the Okinawa islands, Japan

Koutaro Suzuki, Hiroko Oguro, Takeo Yamakawa, Akihiro Yamamoto, Shoichiro Akao, Yuichi Saeki

Research output: Contribution to journalArticle

20 Citations (Scopus)

Abstract

We investigated the genetic diversity and field distribution of indigenous soybean-nodulating rhizobia in the Okinawa islands, using polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis of their 16S rDNA regions and 16S-23S rDNA internal transcribed spacer (ITS) regions. We collected rhizobia from four sites on Okinawa Island, one on Miyako Island and one on Ishigaki Island, isolating 360 strains from soybean cultivars with three Rj-genotypes, Akishirome or Bragg (non-Rj), CNS (Rj2Rj3) and Hill or Fukuyutaka (Rj4), planted with soil from each field site. Phylogenies of all isolates were analyzed by PCR-RFLP with Bradyrhizobium and Sinorhizobium USDA strains as reference strains. The PCR-RFLP analysis of 16S rDNA and the ITS regions revealed the dominance of Bradyrhizobium elkanii strains in acidic Okinawa soils, Miyako soil and Ishigaki soil, and the dominance of Sinorhizobium fredii strains in alkaline Okinawa soils. To detect phaAB genes, which are components of K+ efflux systems similar to Na+/H+ antiporters involved with alkaliphilic traits, we conducted Southern hybridization with a phaAB gene probe. Specific signals were observed in all representative S. fredii strains isolated from Okinawa alkaline soils, but not in any representative Bradyrhizobium strains.

Original languageEnglish
Pages (from-to)237-246
Number of pages10
JournalSoil Science and Plant Nutrition
Volume54
Issue number2
DOIs
Publication statusPublished - Apr 1 2008

Fingerprint

Ryukyu Archipelago
rhizobacterium
Rhizobium
soybean
Japan
soybeans
polymerase chain reaction
Sinorhizobium fredii
polymorphism
soil
restriction fragment length polymorphism
Bradyrhizobium
internal transcribed spacers
dominance (genetics)
Bradyrhizobium elkanii
Sinorhizobium
gene
alkaline soils
distribution
cultivar

All Science Journal Classification (ASJC) codes

  • Soil Science
  • Plant Science

Cite this

Diversity and distribution of indigenous soybean-nodulating rhizobia in the Okinawa islands, Japan. / Suzuki, Koutaro; Oguro, Hiroko; Yamakawa, Takeo; Yamamoto, Akihiro; Akao, Shoichiro; Saeki, Yuichi.

In: Soil Science and Plant Nutrition, Vol. 54, No. 2, 01.04.2008, p. 237-246.

Research output: Contribution to journalArticle

Suzuki, Koutaro ; Oguro, Hiroko ; Yamakawa, Takeo ; Yamamoto, Akihiro ; Akao, Shoichiro ; Saeki, Yuichi. / Diversity and distribution of indigenous soybean-nodulating rhizobia in the Okinawa islands, Japan. In: Soil Science and Plant Nutrition. 2008 ; Vol. 54, No. 2. pp. 237-246.
@article{03bb295f17e64f4e910aecdbfd1bfb31,
title = "Diversity and distribution of indigenous soybean-nodulating rhizobia in the Okinawa islands, Japan",
abstract = "We investigated the genetic diversity and field distribution of indigenous soybean-nodulating rhizobia in the Okinawa islands, using polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis of their 16S rDNA regions and 16S-23S rDNA internal transcribed spacer (ITS) regions. We collected rhizobia from four sites on Okinawa Island, one on Miyako Island and one on Ishigaki Island, isolating 360 strains from soybean cultivars with three Rj-genotypes, Akishirome or Bragg (non-Rj), CNS (Rj2Rj3) and Hill or Fukuyutaka (Rj4), planted with soil from each field site. Phylogenies of all isolates were analyzed by PCR-RFLP with Bradyrhizobium and Sinorhizobium USDA strains as reference strains. The PCR-RFLP analysis of 16S rDNA and the ITS regions revealed the dominance of Bradyrhizobium elkanii strains in acidic Okinawa soils, Miyako soil and Ishigaki soil, and the dominance of Sinorhizobium fredii strains in alkaline Okinawa soils. To detect phaAB genes, which are components of K+ efflux systems similar to Na+/H+ antiporters involved with alkaliphilic traits, we conducted Southern hybridization with a phaAB gene probe. Specific signals were observed in all representative S. fredii strains isolated from Okinawa alkaline soils, but not in any representative Bradyrhizobium strains.",
author = "Koutaro Suzuki and Hiroko Oguro and Takeo Yamakawa and Akihiro Yamamoto and Shoichiro Akao and Yuichi Saeki",
year = "2008",
month = "4",
day = "1",
doi = "10.1111/j.1747-0765.2007.00236.x",
language = "English",
volume = "54",
pages = "237--246",
journal = "Soil Science and Plant Nutrition",
issn = "0038-0768",
publisher = "Taylor and Francis Ltd.",
number = "2",

}

TY - JOUR

T1 - Diversity and distribution of indigenous soybean-nodulating rhizobia in the Okinawa islands, Japan

AU - Suzuki, Koutaro

AU - Oguro, Hiroko

AU - Yamakawa, Takeo

AU - Yamamoto, Akihiro

AU - Akao, Shoichiro

AU - Saeki, Yuichi

PY - 2008/4/1

Y1 - 2008/4/1

N2 - We investigated the genetic diversity and field distribution of indigenous soybean-nodulating rhizobia in the Okinawa islands, using polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis of their 16S rDNA regions and 16S-23S rDNA internal transcribed spacer (ITS) regions. We collected rhizobia from four sites on Okinawa Island, one on Miyako Island and one on Ishigaki Island, isolating 360 strains from soybean cultivars with three Rj-genotypes, Akishirome or Bragg (non-Rj), CNS (Rj2Rj3) and Hill or Fukuyutaka (Rj4), planted with soil from each field site. Phylogenies of all isolates were analyzed by PCR-RFLP with Bradyrhizobium and Sinorhizobium USDA strains as reference strains. The PCR-RFLP analysis of 16S rDNA and the ITS regions revealed the dominance of Bradyrhizobium elkanii strains in acidic Okinawa soils, Miyako soil and Ishigaki soil, and the dominance of Sinorhizobium fredii strains in alkaline Okinawa soils. To detect phaAB genes, which are components of K+ efflux systems similar to Na+/H+ antiporters involved with alkaliphilic traits, we conducted Southern hybridization with a phaAB gene probe. Specific signals were observed in all representative S. fredii strains isolated from Okinawa alkaline soils, but not in any representative Bradyrhizobium strains.

AB - We investigated the genetic diversity and field distribution of indigenous soybean-nodulating rhizobia in the Okinawa islands, using polymerase chain reaction-restriction fragment length polymorphism (PCR-RFLP) analysis of their 16S rDNA regions and 16S-23S rDNA internal transcribed spacer (ITS) regions. We collected rhizobia from four sites on Okinawa Island, one on Miyako Island and one on Ishigaki Island, isolating 360 strains from soybean cultivars with three Rj-genotypes, Akishirome or Bragg (non-Rj), CNS (Rj2Rj3) and Hill or Fukuyutaka (Rj4), planted with soil from each field site. Phylogenies of all isolates were analyzed by PCR-RFLP with Bradyrhizobium and Sinorhizobium USDA strains as reference strains. The PCR-RFLP analysis of 16S rDNA and the ITS regions revealed the dominance of Bradyrhizobium elkanii strains in acidic Okinawa soils, Miyako soil and Ishigaki soil, and the dominance of Sinorhizobium fredii strains in alkaline Okinawa soils. To detect phaAB genes, which are components of K+ efflux systems similar to Na+/H+ antiporters involved with alkaliphilic traits, we conducted Southern hybridization with a phaAB gene probe. Specific signals were observed in all representative S. fredii strains isolated from Okinawa alkaline soils, but not in any representative Bradyrhizobium strains.

UR - http://www.scopus.com/inward/record.url?scp=41749117277&partnerID=8YFLogxK

UR - http://www.scopus.com/inward/citedby.url?scp=41749117277&partnerID=8YFLogxK

U2 - 10.1111/j.1747-0765.2007.00236.x

DO - 10.1111/j.1747-0765.2007.00236.x

M3 - Article

AN - SCOPUS:41749117277

VL - 54

SP - 237

EP - 246

JO - Soil Science and Plant Nutrition

JF - Soil Science and Plant Nutrition

SN - 0038-0768

IS - 2

ER -