Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings

Abstract Nitrogen is not only a macronutrient essential for crop growth and development, but also one of the most critical nutrients in farmland ecosystem. Insufficient nitrogen supply will lead to crop yield reduction, while excessive application of nitrogen fertilizer will cause agricultural and e...
Ausführliche Beschreibung

Gespeichert in:

Autor*in:	Li, Jia [verfasserIn] Xin, Wei Wang, Weiping Zhao, Shijiao Xu, Lu Jiang, Xingdong Duan, Yuxuan Zheng, Hongliang Yang, Luomiao Liu, Hualong Jia, Yan Zou, Detang Wang, Jingguo

Format:	E-Artikel
Sprache:	Englisch

Erschienen:	2022

Schlagwörter:	Rice Genome-wide association study RNA-seq Low-nitrogen tolerance

Anmerkung:	© The Author(s) 2022

Übergeordnetes Werk:	Enthalten in: Rice - New York, NY : Springer New York, 2008, 15(2022), 1 vom: 15. Okt.
Übergeordnetes Werk:	volume:15 ; year:2022 ; number:1 ; day:15 ; month:10

Links:	Volltext

DOI / URN:	10.1186/s12284-022-00597-x

Katalog-ID:	SPR048371920

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allfields	10.1186/s12284-022-00597-x doi (DE-627)SPR048371920 (SPR)s12284-022-00597-x-e DE-627 ger DE-627 rakwb eng Li, Jia verfasserin aut Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings 2022 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © The Author(s) 2022 Abstract Nitrogen is not only a macronutrient essential for crop growth and development, but also one of the most critical nutrients in farmland ecosystem. Insufficient nitrogen supply will lead to crop yield reduction, while excessive application of nitrogen fertilizer will cause agricultural and eco-environment damage. Therefore, mining low-nitrogen tolerant rice genes and improving nitrogen use efficiency are of great significance to the sustainable development of agriculture. This study was conducted by Genome-wide association study on a basis of two root morphological traits (root length and root diameter) and 788,396 SNPs of a natural population of 295 rice varieties. The transcriptome of low-nitrogen tolerant variety (Longjing 31) and low-nitrogen sensitive variety (Songjing 10) were sequenced between low and high nitrogen treatments. A total of 35 QTLs containing 493 genes were mapped. 3085 differential expressed genes were identified. Among these 493 genes, 174 genes showed different haplotype patterns. There were significant phenotype differences among different haplotypes of 58 genes with haplotype differences. These 58 genes were hypothesized as candidate genes for low nitrogen tolerance related to root morphology. Finally, six genes (Os07g0471300, Os11g0230400, Os11g0229300, Os11g0229400, Os11g0618300 and Os11g0229333) which expressed differentially in Longjing 31 were defined as more valuable candidate genes for low-nitrogen tolerance. The results revealed the response characteristics of rice to low-nitrogen, and provided insights into regulatory mechanisms of rice to nitrogen deficiency. Rice (dpeaa)DE-He213 Genome-wide association study (dpeaa)DE-He213 RNA-seq (dpeaa)DE-He213 Low-nitrogen tolerance (dpeaa)DE-He213 Xin, Wei aut Wang, Weiping aut Zhao, Shijiao aut Xu, Lu aut Jiang, Xingdong aut Duan, Yuxuan aut Zheng, Hongliang aut Yang, Luomiao aut Liu, Hualong aut Jia, Yan aut Zou, Detang aut Wang, Jingguo aut Enthalten in Rice New York, NY : Springer New York, 2008 15(2022), 1 vom: 15. Okt. (DE-627)582026636 (DE-600)2457103-9 1939-8433 nnns volume:15 year:2022 number:1 day:15 month:10 https://dx.doi.org/10.1186/s12284-022-00597-x kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER GBV_ILN_20 GBV_ILN_22 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4367 GBV_ILN_4700 AR 15 2022 1 15 10
spelling	10.1186/s12284-022-00597-x doi (DE-627)SPR048371920 (SPR)s12284-022-00597-x-e DE-627 ger DE-627 rakwb eng Li, Jia verfasserin aut Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings 2022 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © The Author(s) 2022 Abstract Nitrogen is not only a macronutrient essential for crop growth and development, but also one of the most critical nutrients in farmland ecosystem. Insufficient nitrogen supply will lead to crop yield reduction, while excessive application of nitrogen fertilizer will cause agricultural and eco-environment damage. Therefore, mining low-nitrogen tolerant rice genes and improving nitrogen use efficiency are of great significance to the sustainable development of agriculture. This study was conducted by Genome-wide association study on a basis of two root morphological traits (root length and root diameter) and 788,396 SNPs of a natural population of 295 rice varieties. The transcriptome of low-nitrogen tolerant variety (Longjing 31) and low-nitrogen sensitive variety (Songjing 10) were sequenced between low and high nitrogen treatments. A total of 35 QTLs containing 493 genes were mapped. 3085 differential expressed genes were identified. Among these 493 genes, 174 genes showed different haplotype patterns. There were significant phenotype differences among different haplotypes of 58 genes with haplotype differences. These 58 genes were hypothesized as candidate genes for low nitrogen tolerance related to root morphology. Finally, six genes (Os07g0471300, Os11g0230400, Os11g0229300, Os11g0229400, Os11g0618300 and Os11g0229333) which expressed differentially in Longjing 31 were defined as more valuable candidate genes for low-nitrogen tolerance. The results revealed the response characteristics of rice to low-nitrogen, and provided insights into regulatory mechanisms of rice to nitrogen deficiency. Rice (dpeaa)DE-He213 Genome-wide association study (dpeaa)DE-He213 RNA-seq (dpeaa)DE-He213 Low-nitrogen tolerance (dpeaa)DE-He213 Xin, Wei aut Wang, Weiping aut Zhao, Shijiao aut Xu, Lu aut Jiang, Xingdong aut Duan, Yuxuan aut Zheng, Hongliang aut Yang, Luomiao aut Liu, Hualong aut Jia, Yan aut Zou, Detang aut Wang, Jingguo aut Enthalten in Rice New York, NY : Springer New York, 2008 15(2022), 1 vom: 15. Okt. (DE-627)582026636 (DE-600)2457103-9 1939-8433 nnns volume:15 year:2022 number:1 day:15 month:10 https://dx.doi.org/10.1186/s12284-022-00597-x kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER GBV_ILN_20 GBV_ILN_22 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4367 GBV_ILN_4700 AR 15 2022 1 15 10
allfields_unstemmed	10.1186/s12284-022-00597-x doi (DE-627)SPR048371920 (SPR)s12284-022-00597-x-e DE-627 ger DE-627 rakwb eng Li, Jia verfasserin aut Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings 2022 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © The Author(s) 2022 Abstract Nitrogen is not only a macronutrient essential for crop growth and development, but also one of the most critical nutrients in farmland ecosystem. Insufficient nitrogen supply will lead to crop yield reduction, while excessive application of nitrogen fertilizer will cause agricultural and eco-environment damage. Therefore, mining low-nitrogen tolerant rice genes and improving nitrogen use efficiency are of great significance to the sustainable development of agriculture. This study was conducted by Genome-wide association study on a basis of two root morphological traits (root length and root diameter) and 788,396 SNPs of a natural population of 295 rice varieties. The transcriptome of low-nitrogen tolerant variety (Longjing 31) and low-nitrogen sensitive variety (Songjing 10) were sequenced between low and high nitrogen treatments. A total of 35 QTLs containing 493 genes were mapped. 3085 differential expressed genes were identified. Among these 493 genes, 174 genes showed different haplotype patterns. There were significant phenotype differences among different haplotypes of 58 genes with haplotype differences. These 58 genes were hypothesized as candidate genes for low nitrogen tolerance related to root morphology. Finally, six genes (Os07g0471300, Os11g0230400, Os11g0229300, Os11g0229400, Os11g0618300 and Os11g0229333) which expressed differentially in Longjing 31 were defined as more valuable candidate genes for low-nitrogen tolerance. The results revealed the response characteristics of rice to low-nitrogen, and provided insights into regulatory mechanisms of rice to nitrogen deficiency. Rice (dpeaa)DE-He213 Genome-wide association study (dpeaa)DE-He213 RNA-seq (dpeaa)DE-He213 Low-nitrogen tolerance (dpeaa)DE-He213 Xin, Wei aut Wang, Weiping aut Zhao, Shijiao aut Xu, Lu aut Jiang, Xingdong aut Duan, Yuxuan aut Zheng, Hongliang aut Yang, Luomiao aut Liu, Hualong aut Jia, Yan aut Zou, Detang aut Wang, Jingguo aut Enthalten in Rice New York, NY : Springer New York, 2008 15(2022), 1 vom: 15. Okt. (DE-627)582026636 (DE-600)2457103-9 1939-8433 nnns volume:15 year:2022 number:1 day:15 month:10 https://dx.doi.org/10.1186/s12284-022-00597-x kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER GBV_ILN_20 GBV_ILN_22 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4367 GBV_ILN_4700 AR 15 2022 1 15 10
allfieldsGer	10.1186/s12284-022-00597-x doi (DE-627)SPR048371920 (SPR)s12284-022-00597-x-e DE-627 ger DE-627 rakwb eng Li, Jia verfasserin aut Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings 2022 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © The Author(s) 2022 Abstract Nitrogen is not only a macronutrient essential for crop growth and development, but also one of the most critical nutrients in farmland ecosystem. Insufficient nitrogen supply will lead to crop yield reduction, while excessive application of nitrogen fertilizer will cause agricultural and eco-environment damage. Therefore, mining low-nitrogen tolerant rice genes and improving nitrogen use efficiency are of great significance to the sustainable development of agriculture. This study was conducted by Genome-wide association study on a basis of two root morphological traits (root length and root diameter) and 788,396 SNPs of a natural population of 295 rice varieties. The transcriptome of low-nitrogen tolerant variety (Longjing 31) and low-nitrogen sensitive variety (Songjing 10) were sequenced between low and high nitrogen treatments. A total of 35 QTLs containing 493 genes were mapped. 3085 differential expressed genes were identified. Among these 493 genes, 174 genes showed different haplotype patterns. There were significant phenotype differences among different haplotypes of 58 genes with haplotype differences. These 58 genes were hypothesized as candidate genes for low nitrogen tolerance related to root morphology. Finally, six genes (Os07g0471300, Os11g0230400, Os11g0229300, Os11g0229400, Os11g0618300 and Os11g0229333) which expressed differentially in Longjing 31 were defined as more valuable candidate genes for low-nitrogen tolerance. The results revealed the response characteristics of rice to low-nitrogen, and provided insights into regulatory mechanisms of rice to nitrogen deficiency. Rice (dpeaa)DE-He213 Genome-wide association study (dpeaa)DE-He213 RNA-seq (dpeaa)DE-He213 Low-nitrogen tolerance (dpeaa)DE-He213 Xin, Wei aut Wang, Weiping aut Zhao, Shijiao aut Xu, Lu aut Jiang, Xingdong aut Duan, Yuxuan aut Zheng, Hongliang aut Yang, Luomiao aut Liu, Hualong aut Jia, Yan aut Zou, Detang aut Wang, Jingguo aut Enthalten in Rice New York, NY : Springer New York, 2008 15(2022), 1 vom: 15. Okt. (DE-627)582026636 (DE-600)2457103-9 1939-8433 nnns volume:15 year:2022 number:1 day:15 month:10 https://dx.doi.org/10.1186/s12284-022-00597-x kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER GBV_ILN_20 GBV_ILN_22 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4367 GBV_ILN_4700 AR 15 2022 1 15 10
allfieldsSound	10.1186/s12284-022-00597-x doi (DE-627)SPR048371920 (SPR)s12284-022-00597-x-e DE-627 ger DE-627 rakwb eng Li, Jia verfasserin aut Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings 2022 Text txt rdacontent Computermedien c rdamedia Online-Ressource cr rdacarrier © The Author(s) 2022 Abstract Nitrogen is not only a macronutrient essential for crop growth and development, but also one of the most critical nutrients in farmland ecosystem. Insufficient nitrogen supply will lead to crop yield reduction, while excessive application of nitrogen fertilizer will cause agricultural and eco-environment damage. Therefore, mining low-nitrogen tolerant rice genes and improving nitrogen use efficiency are of great significance to the sustainable development of agriculture. This study was conducted by Genome-wide association study on a basis of two root morphological traits (root length and root diameter) and 788,396 SNPs of a natural population of 295 rice varieties. The transcriptome of low-nitrogen tolerant variety (Longjing 31) and low-nitrogen sensitive variety (Songjing 10) were sequenced between low and high nitrogen treatments. A total of 35 QTLs containing 493 genes were mapped. 3085 differential expressed genes were identified. Among these 493 genes, 174 genes showed different haplotype patterns. There were significant phenotype differences among different haplotypes of 58 genes with haplotype differences. These 58 genes were hypothesized as candidate genes for low nitrogen tolerance related to root morphology. Finally, six genes (Os07g0471300, Os11g0230400, Os11g0229300, Os11g0229400, Os11g0618300 and Os11g0229333) which expressed differentially in Longjing 31 were defined as more valuable candidate genes for low-nitrogen tolerance. The results revealed the response characteristics of rice to low-nitrogen, and provided insights into regulatory mechanisms of rice to nitrogen deficiency. Rice (dpeaa)DE-He213 Genome-wide association study (dpeaa)DE-He213 RNA-seq (dpeaa)DE-He213 Low-nitrogen tolerance (dpeaa)DE-He213 Xin, Wei aut Wang, Weiping aut Zhao, Shijiao aut Xu, Lu aut Jiang, Xingdong aut Duan, Yuxuan aut Zheng, Hongliang aut Yang, Luomiao aut Liu, Hualong aut Jia, Yan aut Zou, Detang aut Wang, Jingguo aut Enthalten in Rice New York, NY : Springer New York, 2008 15(2022), 1 vom: 15. Okt. (DE-627)582026636 (DE-600)2457103-9 1939-8433 nnns volume:15 year:2022 number:1 day:15 month:10 https://dx.doi.org/10.1186/s12284-022-00597-x kostenfrei Volltext GBV_USEFLAG_A SYSFLAG_A GBV_SPRINGER GBV_ILN_20 GBV_ILN_22 GBV_ILN_24 GBV_ILN_31 GBV_ILN_39 GBV_ILN_40 GBV_ILN_60 GBV_ILN_62 GBV_ILN_63 GBV_ILN_65 GBV_ILN_69 GBV_ILN_70 GBV_ILN_73 GBV_ILN_95 GBV_ILN_105 GBV_ILN_110 GBV_ILN_151 GBV_ILN_161 GBV_ILN_206 GBV_ILN_213 GBV_ILN_230 GBV_ILN_285 GBV_ILN_293 GBV_ILN_602 GBV_ILN_2005 GBV_ILN_2009 GBV_ILN_2011 GBV_ILN_2014 GBV_ILN_2055 GBV_ILN_2111 GBV_ILN_4012 GBV_ILN_4037 GBV_ILN_4112 GBV_ILN_4125 GBV_ILN_4126 GBV_ILN_4249 GBV_ILN_4305 GBV_ILN_4306 GBV_ILN_4307 GBV_ILN_4313 GBV_ILN_4322 GBV_ILN_4323 GBV_ILN_4324 GBV_ILN_4325 GBV_ILN_4367 GBV_ILN_4700 AR 15 2022 1 15 10
language	English
source	Enthalten in Rice 15(2022), 1 vom: 15. Okt. volume:15 year:2022 number:1 day:15 month:10
sourceStr	Enthalten in Rice 15(2022), 1 vom: 15. Okt. volume:15 year:2022 number:1 day:15 month:10
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topic_facet	Rice Genome-wide association study RNA-seq Low-nitrogen tolerance
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authorswithroles_txt_mv	Li, Jia @@aut@@ Xin, Wei @@aut@@ Wang, Weiping @@aut@@ Zhao, Shijiao @@aut@@ Xu, Lu @@aut@@ Jiang, Xingdong @@aut@@ Duan, Yuxuan @@aut@@ Zheng, Hongliang @@aut@@ Yang, Luomiao @@aut@@ Liu, Hualong @@aut@@ Jia, Yan @@aut@@ Zou, Detang @@aut@@ Wang, Jingguo @@aut@@
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author	Li, Jia
spellingShingle	Li, Jia misc Rice misc Genome-wide association study misc RNA-seq misc Low-nitrogen tolerance Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings
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topic_title	Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings Rice (dpeaa)DE-He213 Genome-wide association study (dpeaa)DE-He213 RNA-seq (dpeaa)DE-He213 Low-nitrogen tolerance (dpeaa)DE-He213
topic	misc Rice misc Genome-wide association study misc RNA-seq misc Low-nitrogen tolerance
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title	Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings
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title_full	Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings
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author_browse	Li, Jia Xin, Wei Wang, Weiping Zhao, Shijiao Xu, Lu Jiang, Xingdong Duan, Yuxuan Zheng, Hongliang Yang, Luomiao Liu, Hualong Jia, Yan Zou, Detang Wang, Jingguo
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title_sort	mapping of candidate genes in response to low nitrogen in rice seedlings
title_auth	Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings
abstract	Abstract Nitrogen is not only a macronutrient essential for crop growth and development, but also one of the most critical nutrients in farmland ecosystem. Insufficient nitrogen supply will lead to crop yield reduction, while excessive application of nitrogen fertilizer will cause agricultural and eco-environment damage. Therefore, mining low-nitrogen tolerant rice genes and improving nitrogen use efficiency are of great significance to the sustainable development of agriculture. This study was conducted by Genome-wide association study on a basis of two root morphological traits (root length and root diameter) and 788,396 SNPs of a natural population of 295 rice varieties. The transcriptome of low-nitrogen tolerant variety (Longjing 31) and low-nitrogen sensitive variety (Songjing 10) were sequenced between low and high nitrogen treatments. A total of 35 QTLs containing 493 genes were mapped. 3085 differential expressed genes were identified. Among these 493 genes, 174 genes showed different haplotype patterns. There were significant phenotype differences among different haplotypes of 58 genes with haplotype differences. These 58 genes were hypothesized as candidate genes for low nitrogen tolerance related to root morphology. Finally, six genes (Os07g0471300, Os11g0230400, Os11g0229300, Os11g0229400, Os11g0618300 and Os11g0229333) which expressed differentially in Longjing 31 were defined as more valuable candidate genes for low-nitrogen tolerance. The results revealed the response characteristics of rice to low-nitrogen, and provided insights into regulatory mechanisms of rice to nitrogen deficiency. © The Author(s) 2022
abstractGer	Abstract Nitrogen is not only a macronutrient essential for crop growth and development, but also one of the most critical nutrients in farmland ecosystem. Insufficient nitrogen supply will lead to crop yield reduction, while excessive application of nitrogen fertilizer will cause agricultural and eco-environment damage. Therefore, mining low-nitrogen tolerant rice genes and improving nitrogen use efficiency are of great significance to the sustainable development of agriculture. This study was conducted by Genome-wide association study on a basis of two root morphological traits (root length and root diameter) and 788,396 SNPs of a natural population of 295 rice varieties. The transcriptome of low-nitrogen tolerant variety (Longjing 31) and low-nitrogen sensitive variety (Songjing 10) were sequenced between low and high nitrogen treatments. A total of 35 QTLs containing 493 genes were mapped. 3085 differential expressed genes were identified. Among these 493 genes, 174 genes showed different haplotype patterns. There were significant phenotype differences among different haplotypes of 58 genes with haplotype differences. These 58 genes were hypothesized as candidate genes for low nitrogen tolerance related to root morphology. Finally, six genes (Os07g0471300, Os11g0230400, Os11g0229300, Os11g0229400, Os11g0618300 and Os11g0229333) which expressed differentially in Longjing 31 were defined as more valuable candidate genes for low-nitrogen tolerance. The results revealed the response characteristics of rice to low-nitrogen, and provided insights into regulatory mechanisms of rice to nitrogen deficiency. © The Author(s) 2022
abstract_unstemmed	Abstract Nitrogen is not only a macronutrient essential for crop growth and development, but also one of the most critical nutrients in farmland ecosystem. Insufficient nitrogen supply will lead to crop yield reduction, while excessive application of nitrogen fertilizer will cause agricultural and eco-environment damage. Therefore, mining low-nitrogen tolerant rice genes and improving nitrogen use efficiency are of great significance to the sustainable development of agriculture. This study was conducted by Genome-wide association study on a basis of two root morphological traits (root length and root diameter) and 788,396 SNPs of a natural population of 295 rice varieties. The transcriptome of low-nitrogen tolerant variety (Longjing 31) and low-nitrogen sensitive variety (Songjing 10) were sequenced between low and high nitrogen treatments. A total of 35 QTLs containing 493 genes were mapped. 3085 differential expressed genes were identified. Among these 493 genes, 174 genes showed different haplotype patterns. There were significant phenotype differences among different haplotypes of 58 genes with haplotype differences. These 58 genes were hypothesized as candidate genes for low nitrogen tolerance related to root morphology. Finally, six genes (Os07g0471300, Os11g0230400, Os11g0229300, Os11g0229400, Os11g0618300 and Os11g0229333) which expressed differentially in Longjing 31 were defined as more valuable candidate genes for low-nitrogen tolerance. The results revealed the response characteristics of rice to low-nitrogen, and provided insights into regulatory mechanisms of rice to nitrogen deficiency. © The Author(s) 2022
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title_short	Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings
url	https://dx.doi.org/10.1186/s12284-022-00597-x
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author2	Xin, Wei Wang, Weiping Zhao, Shijiao Xu, Lu Jiang, Xingdong Duan, Yuxuan Zheng, Hongliang Yang, Luomiao Liu, Hualong Jia, Yan Zou, Detang Wang, Jingguo
author2Str	Xin, Wei Wang, Weiping Zhao, Shijiao Xu, Lu Jiang, Xingdong Duan, Yuxuan Zheng, Hongliang Yang, Luomiao Liu, Hualong Jia, Yan Zou, Detang Wang, Jingguo
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up_date	2024-07-03T18:46:49.646Z
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Insufficient nitrogen supply will lead to crop yield reduction, while excessive application of nitrogen fertilizer will cause agricultural and eco-environment damage. Therefore, mining low-nitrogen tolerant rice genes and improving nitrogen use efficiency are of great significance to the sustainable development of agriculture. This study was conducted by Genome-wide association study on a basis of two root morphological traits (root length and root diameter) and 788,396 SNPs of a natural population of 295 rice varieties. The transcriptome of low-nitrogen tolerant variety (Longjing 31) and low-nitrogen sensitive variety (Songjing 10) were sequenced between low and high nitrogen treatments. A total of 35 QTLs containing 493 genes were mapped. 3085 differential expressed genes were identified. Among these 493 genes, 174 genes showed different haplotype patterns. There were significant phenotype differences among different haplotypes of 58 genes with haplotype differences. These 58 genes were hypothesized as candidate genes for low nitrogen tolerance related to root morphology. Finally, six genes (Os07g0471300, Os11g0230400, Os11g0229300, Os11g0229400, Os11g0618300 and Os11g0229333) which expressed differentially in Longjing 31 were defined as more valuable candidate genes for low-nitrogen tolerance. 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Mapping of Candidate Genes in Response to Low Nitrogen in Rice Seedlings

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