Loss-of-Function Alleles of Heading date 1 (Hd1) Are Associated With Adaptation of Temperate Japonica Rice Plants to the Tropical Region

Adaptation of temperate rice varieties to tropical regions is impeded by extremely early flowering probably due to photoperiod change from long to short. However, constant breeding efforts led to development of temperate varieties adapted to tropical/subtropical regions, but the genetic factor under...

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Veröffentlicht in:Frontiers in plant science Jg. 9; S. 1827
Hauptverfasser: Kim, Sung-Ryul, Torollo, Gideon, Yoon, Mi-Ra, Kwak, Jieun, Lee, Choon-Ki, Prahalada, G. D., Choi, Il-Ryong, Yeo, Un-Sang, Jeong, O-Young, Jena, Kshirod K., Lee, Jeom-Sig
Format: Journal Article
Sprache:Englisch
Veröffentlicht: Switzerland Frontiers Media SA 10.12.2018
Frontiers Media S.A
Schlagworte:
Adaptation
Alleles
Breeding
Cultivars
Data points
Flowering
flowering time
Genes
Genetic analysis
genetic diversity
Germplasm
Hd1
heading date
Plant Science
Rice
Single-nucleotide polymorphism
temperate japonica
Tropical environment
Tropical environments
tropics
Winter
Philippines
Japan
Taiwan
genetic diversity
Hd1
flowering time
tropics
rice
temperate japonica
heading date
ISSN:1664-462X, 1664-462X
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Abstract Adaptation of temperate rice varieties to tropical regions is impeded by extremely early flowering probably due to photoperiod change from long to short. However, constant breeding efforts led to development of temperate varieties adapted to tropical/subtropical regions, but the genetic factor underlying this is still elusive. We analyzed the 45 diverse rice accessions and 12 tropical-adapted temperate lines for the allele types of seven major flowering genes , and and flowering time under three different field conditions in temperate and tropical locations. The accessions originated from the tropical/subtropical regions preferred the non-functional alleles of and not other flowering genes. The genetic effect analysis of each gene showed that only the functional caused early flowering in the tropical location. All 12 temperate breeding lines adapted to the tropics possessed the loss-of-function alleles of with no change of other flowering genes compared to common Korean temperate varieties. A phylogenetic analysis using 2,918 SNP data points revealed that the genome status of the 12 breeding lines were very similar to Korean temperate varieties. These results indicate that the functional alleles of temperate varieties induced extremely early flowering in the tropics and the non-functional alleles brought about the adaptation of temperate rice to tropical regions.
AbstractList Adaptation of temperate japonica rice varieties to tropical regions is impeded by extremely early flowering probably due to photoperiod change from long to short. However, constant breeding efforts led to development of temperate japonica varieties adapted to tropical/subtropical regions, but the genetic factor underlying this is still elusive. We analyzed the 45 diverse rice accessions and 12 tropical-adapted temperate japonica lines for the allele types of seven major flowering genes Hd1, OsPPR37, DTH8, Ghd7, Ehd1, RFT1 , and Hd3a and flowering time under three different field conditions in temperate and tropical locations. The accessions originated from the tropical/subtropical regions preferred the non-functional alleles of Hd1 and not other flowering genes. The genetic effect analysis of each gene showed that only the functional Hd1 caused early flowering in the tropical location. All 12 temperate japonica breeding lines adapted to the tropics possessed the loss-of-function alleles of Hd1 with no change of other flowering genes compared to common Korean temperate japonica varieties. A phylogenetic analysis using 2,918 SNP data points revealed that the genome status of the 12 breeding lines were very similar to Korean temperate japonica varieties. These results indicate that the functional Hd1 alleles of temperate japonica varieties induced extremely early flowering in the tropics and the non-functional hd1 alleles brought about the adaptation of temperate japonica rice to tropical regions.
Adaptation of temperate japonica rice varieties to tropical regions is impeded by extremely early flowering probably due to photoperiod change from long to short. However, constant breeding efforts led to development of temperate japonica varieties adapted to tropical/subtropical regions, but the genetic factor underlying this is still elusive. We analyzed the 45 diverse rice accessions and 12 tropical-adapted temperate japonica lines for the allele types of seven major flowering genes Hd1, OsPPR37, DTH8, Ghd7, Ehd1, RFT1, and Hd3a and flowering time under three different field conditions in temperate and tropical locations. The accessions originated from the tropical/subtropical regions preferred the non-functional alleles of Hd1 and not other flowering genes. The genetic effect analysis of each gene showed that only the functional Hd1 caused early flowering in the tropical location. All 12 temperate japonica breeding lines adapted to the tropics possessed the loss-of-function alleles of Hd1 with no change of other flowering genes compared to common Korean temperate japonica varieties. A phylogenetic analysis using 2,918 SNP data points revealed that the genome status of the 12 breeding lines were very similar to Korean temperate japonica varieties. These results indicate that the functional Hd1 alleles of temperate japonica varieties induced extremely early flowering in the tropics and the non-functional hd1 alleles brought about the adaptation of temperate japonica rice to tropical regions.Adaptation of temperate japonica rice varieties to tropical regions is impeded by extremely early flowering probably due to photoperiod change from long to short. However, constant breeding efforts led to development of temperate japonica varieties adapted to tropical/subtropical regions, but the genetic factor underlying this is still elusive. We analyzed the 45 diverse rice accessions and 12 tropical-adapted temperate japonica lines for the allele types of seven major flowering genes Hd1, OsPPR37, DTH8, Ghd7, Ehd1, RFT1, and Hd3a and flowering time under three different field conditions in temperate and tropical locations. The accessions originated from the tropical/subtropical regions preferred the non-functional alleles of Hd1 and not other flowering genes. The genetic effect analysis of each gene showed that only the functional Hd1 caused early flowering in the tropical location. All 12 temperate japonica breeding lines adapted to the tropics possessed the loss-of-function alleles of Hd1 with no change of other flowering genes compared to common Korean temperate japonica varieties. A phylogenetic analysis using 2,918 SNP data points revealed that the genome status of the 12 breeding lines were very similar to Korean temperate japonica varieties. These results indicate that the functional Hd1 alleles of temperate japonica varieties induced extremely early flowering in the tropics and the non-functional hd1 alleles brought about the adaptation of temperate japonica rice to tropical regions.
Adaptation of temperate rice varieties to tropical regions is impeded by extremely early flowering probably due to photoperiod change from long to short. However, constant breeding efforts led to development of temperate varieties adapted to tropical/subtropical regions, but the genetic factor underlying this is still elusive. We analyzed the 45 diverse rice accessions and 12 tropical-adapted temperate lines for the allele types of seven major flowering genes , and and flowering time under three different field conditions in temperate and tropical locations. The accessions originated from the tropical/subtropical regions preferred the non-functional alleles of and not other flowering genes. The genetic effect analysis of each gene showed that only the functional caused early flowering in the tropical location. All 12 temperate breeding lines adapted to the tropics possessed the loss-of-function alleles of with no change of other flowering genes compared to common Korean temperate varieties. A phylogenetic analysis using 2,918 SNP data points revealed that the genome status of the 12 breeding lines were very similar to Korean temperate varieties. These results indicate that the functional alleles of temperate varieties induced extremely early flowering in the tropics and the non-functional alleles brought about the adaptation of temperate rice to tropical regions.
Author Lee, Choon-Ki
Yeo, Un-Sang
Prahalada, G. D.
Kwak, Jieun
Yoon, Mi-Ra
Jeong, O-Young
Torollo, Gideon
Lee, Jeom-Sig
Kim, Sung-Ryul
Choi, Il-Ryong
Jena, Kshirod K.
AuthorAffiliation 1 Strategic Innovation Platform, International Rice Research Institute , Metro Manila , Philippines
2 Rice Breeding Platform, International Rice Research Institute , Metro Manila , Philippines
3 National Institute of Crop Science, Rural Development Administration , Jeonju , South Korea
AuthorAffiliation_xml – name: 3 National Institute of Crop Science, Rural Development Administration , Jeonju , South Korea
– name: 1 Strategic Innovation Platform, International Rice Research Institute , Metro Manila , Philippines
– name: 2 Rice Breeding Platform, International Rice Research Institute , Metro Manila , Philippines
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BackLink https://www.ncbi.nlm.nih.gov/pubmed/30619400$$D View this record in MEDLINE/PubMed
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Copyright © 2018 Kim, Torollo, Yoon, Kwak, Lee, Prahalada, Choi, Yeo, Jeong, Jena and Lee. 2018 Kim, Torollo, Yoon, Kwak, Lee, Prahalada, Choi, Yeo, Jeong, Jena and Lee
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– notice: Copyright © 2018 Kim, Torollo, Yoon, Kwak, Lee, Prahalada, Choi, Yeo, Jeong, Jena and Lee. 2018 Kim, Torollo, Yoon, Kwak, Lee, Prahalada, Choi, Yeo, Jeong, Jena and Lee
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Keywords genetic diversity
Hd1
flowering time
tropics
rice
temperate japonica
heading date
Language English
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Edited by: Giampiero Valè, Cereal Research Centre, CRA-CER, Italy
Reviewed by: Fabio Fornara, University of Milan, Italy; Fan Chen, Institute of Genetics and Developmental Biology (CAS), China; Yongzhong Xing, Huazhong Agricultural University, China
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Snippet Adaptation of temperate rice varieties to tropical regions is impeded by extremely early flowering probably due to photoperiod change from long to short....
Adaptation of temperate japonica rice varieties to tropical regions is impeded by extremely early flowering probably due to photoperiod change from long to...
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StartPage 1827
SubjectTerms Adaptation
Alleles
Breeding
Cultivars
Data points
Flowering
flowering time
Genes
Genetic analysis
genetic diversity
Germplasm
Hd1
heading date
Plant Science
Rice
Single-nucleotide polymorphism
temperate japonica
Tropical environment
Tropical environments
tropics
Winter
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Title Loss-of-Function Alleles of Heading date 1 (Hd1) Are Associated With Adaptation of Temperate Japonica Rice Plants to the Tropical Region
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