PMID- 28983307
OWN - NLM
STAT- PubMed-not-MEDLINE
LR  - 20220409
IS  - 1664-462X (Print)
IS  - 1664-462X (Electronic)
IS  - 1664-462X (Linking)
VI  - 8
DP  - 2017
TI  - QTL Mapping by Whole Genome Re-sequencing and Analysis of Candidate Genes for 
      Nitrogen Use Efficiency in Rice.
PG  - 1634
LID - 10.3389/fpls.2017.01634 [doi]
LID - 1634
AB  - Nitrogen is a major nutritional element in rice production. However, excessive 
      application of nitrogen fertilizer has caused severe environmental pollution. 
      Therefore, development of rice varieties with improved nitrogen use efficiency 
      (NUE) is urgent for sustainable agriculture. In this study, bulked segregant 
      analysis (BSA) combined with whole genome re-sequencing (WGS) technology was 
      applied to finely map quantitative trait loci (QTL) for NUE. A key QTL, 
      designated as qNUE6 was identified on chromosome 6 and further validated by 
      Insertion/Deletion (InDel) marker-based substitutional mapping in recombinants 
      from F(2) population (NIL-13B4 x GH998). Forty-four genes were identified in this 
      266.5-kb region. According to detection and annotation analysis of variation 
      sites, 39 genes with large-effect single-nucleotide polymorphisms (SNPs) and 
      large-effect InDels were selected as candidates and their expression levels were 
      analyzed by qRT-PCR. Significant differences in the expression levels of 
      LOC_Os06g15370 (peptide transporter PTR2) and LOC_Os06g15420 (asparagine 
      synthetase) were observed between two parents (Y11 and GH998). Phylogenetic 
      analysis in Arabidopsis thaliana identified two closely related homologs, 
      AT1G68570 (AtNPF3.1) and AT5G65010 (ASN2), which share 72.3 and 87.5% amino acid 
      similarity with LOC_Os06g15370 and LOC_Os06g15420, respectively. Taken together, 
      our results suggested that qNUE6 is a possible candidate gene for NUE in rice. 
      The fine mapping and candidate gene analysis of qNUE6 provide the basis of 
      molecular breeding for genetic improvement of rice varieties with high NUE, and 
      lay the foundation for further cloning and functional analysis.
FAU - Yang, Xinghai
AU  - Yang X
AD  - Rice Research Institute, Guangxi Academy of Agricultural SciencesNanning, China.
FAU - Xia, Xiuzhong
AU  - Xia X
AD  - Rice Research Institute, Guangxi Academy of Agricultural SciencesNanning, China.
FAU - Zhang, Zongqiong
AU  - Zhang Z
AD  - Rice Research Institute, Guangxi Academy of Agricultural SciencesNanning, China.
FAU - Nong, Baoxuan
AU  - Nong B
AD  - Rice Research Institute, Guangxi Academy of Agricultural SciencesNanning, China.
FAU - Zeng, Yu
AU  - Zeng Y
AD  - Rice Research Institute, Guangxi Academy of Agricultural SciencesNanning, China.
FAU - Xiong, Faqian
AU  - Xiong F
AD  - Cash Crops Research Institute, Guangxi Academy of Agricultural SciencesNanning, 
      China.
FAU - Wu, Yanyan
AU  - Wu Y
AD  - Biotechnology Research Institute, Guangxi Academy of Agricultural 
      SciencesNanning, China.
FAU - Gao, Ju
AU  - Gao J
AD  - Guangxi Crop Genetic Improvement and Biotechnology Laboratory, Guangxi Academy of 
      Agricultural SciencesNanning, China.
FAU - Deng, Guofu
AU  - Deng G
AD  - Rice Research Institute, Guangxi Academy of Agricultural SciencesNanning, China.
FAU - Li, Danting
AU  - Li D
AD  - Rice Research Institute, Guangxi Academy of Agricultural SciencesNanning, China.
LA  - eng
PT  - Journal Article
DEP - 20170921
PL  - Switzerland
TA  - Front Plant Sci
JT  - Frontiers in plant science
JID - 101568200
PMC - PMC5613164
OTO - NOTNLM
OT  - QTL
OT  - candidate genes
OT  - nitrogen use efficiency
OT  - rice
OT  - whole genome re-sequencing
EDAT- 2017/10/07 06:00
MHDA- 2017/10/07 06:01
PMCR- 2017/01/01
CRDT- 2017/10/07 06:00
PHST- 2017/04/21 00:00 [received]
PHST- 2017/09/06 00:00 [accepted]
PHST- 2017/10/07 06:00 [entrez]
PHST- 2017/10/07 06:00 [pubmed]
PHST- 2017/10/07 06:01 [medline]
PHST- 2017/01/01 00:00 [pmc-release]
AID - 10.3389/fpls.2017.01634 [doi]
PST - epublish
SO  - Front Plant Sci. 2017 Sep 21;8:1634. doi: 10.3389/fpls.2017.01634. eCollection 
      2017.