Nucleotide polymorphisms in OsAGP genes and their possible association with grain weight of rice

TY - JOUR

T1 - Nucleotide polymorphisms in OsAGP genes and their possible association with grain weight of rice

AU - Bao, Jinsong

AU - Lu, Yan

AU - Yang, Feng

AU - Zhang, Gan

AU - Shao, Yafang

AU - Corke, Harold

AU - Sun, Mei

N1 - Funding Information: Financial support for this research was provided in part by the Hong Kong Research Grants Council GRF award ( 7507/06M ), Program for New Century Excellent Talents in University ( NCET-08-0484 ), Zhejiang Provincial Natural Science Foundation of China ( R3080016 ), the Science and Technology Department of Zhejiang Province (2010C32082), and National High Technology Development Project of China ( 2006AA10Z193 ).

PY - 2012/5

Y1 - 2012/5

N2 - ADP-Glucose pyrophosphorylase (AGPase) is a rate-limiting enzyme participating in starch biosynthesis, which may be responsible for the filling rate and starch accumulation in the developing rice kernel. However, it is still unknown whether the naturally occurring variation in the sequence of ADP-Glucose pyrophosphorylase of rice (OsAGP) is related to the grain weight (GW). In this study, we discovered a total of 38 single nucleotide polymorphisms (SNPs) and insertions/deletions (InDels) in the partial sequences of six OsAGP isoform genes from 30 rice accessions with diverse agronomic traits. We then developed ten cleaved amplified polymorphic sequence (CAPS) and derived CAPS (dCAPS) markers for genotyping the SNPs and InDels for an association mapping population consisting of 416 rice accessions. Candidate gene association study indicated that an InDel of OsAGPL4 was associated with GW in two environments and an SNP of OsAGPL2 was associated with GW in one environment. Each gene marker only explained 1% of the variation of GW, thus it could be concluded that both genes contributed little to GW of rice. However, the markers identified in this study could be used for tagging other traits of interests and in molecular breeding.

AB - ADP-Glucose pyrophosphorylase (AGPase) is a rate-limiting enzyme participating in starch biosynthesis, which may be responsible for the filling rate and starch accumulation in the developing rice kernel. However, it is still unknown whether the naturally occurring variation in the sequence of ADP-Glucose pyrophosphorylase of rice (OsAGP) is related to the grain weight (GW). In this study, we discovered a total of 38 single nucleotide polymorphisms (SNPs) and insertions/deletions (InDels) in the partial sequences of six OsAGP isoform genes from 30 rice accessions with diverse agronomic traits. We then developed ten cleaved amplified polymorphic sequence (CAPS) and derived CAPS (dCAPS) markers for genotyping the SNPs and InDels for an association mapping population consisting of 416 rice accessions. Candidate gene association study indicated that an InDel of OsAGPL4 was associated with GW in two environments and an SNP of OsAGPL2 was associated with GW in one environment. Each gene marker only explained 1% of the variation of GW, thus it could be concluded that both genes contributed little to GW of rice. However, the markers identified in this study could be used for tagging other traits of interests and in molecular breeding.

KW - ADP-Glucose pyrophosphorylase

KW - Grain yield

KW - Rice

KW - Starch

UR - http://www.scopus.com/inward/record.url?scp=84862817024&partnerID=8YFLogxK

U2 - 10.1016/j.jcs.2012.01.001

DO - 10.1016/j.jcs.2012.01.001

M3 - 文章

AN - SCOPUS:84862817024

SN - 0733-5210

VL - 55

SP - 312

EP - 317

JO - Journal of Cereal Science

JF - Journal of Cereal Science

IS - 3

ER -