Asif I, Niu J, Qiang D, Wang X R, Gui H P, Zhang H H, Pang N C, Zhang X, Song M Z. 2022. Physiological characteristics of cotton subtending leaf are associated with yield in contrasting nitrogen-efficient cotton genotypes. Frontiers in Plant Science, 13, 825116.
Bird K A, VanBuren R, Puzey J R, Edger P P. 2018. The causes and consequences of subgenome dominance in hybrids and recent polyploids. New Phytologist, 220, 87–93.
Carneiro M, Rubin C J, Di Palma F, Albert F W, Alfoldi J, Martinez Barrio A, Pielberg G, Rafati N, Sayyab S, Turner-Maier J, Younis S, Afonso S, Aken B, Alves J M, Barrell D, Bolet G, Boucher S, Burbano H A, Campos R, Chang J L, et al. 2014. Rabbit genome analysis reveals a polygenic basis for phenotypic change during domestication. Science, 345, 1074–1079.
Chardon F, Noel V, Masclaux-Daubresse C. 2012. Exploring NUE in crops and in Arabidopsis ideotypes to improve yield and seed quality. Journal of Experimental Botany, 63, 3401–3412.
Chen C J, Chen H, Zhang Y, Thomas H R, Frank M H, He Y H, Xia R. 2020. TBtools: An integrative toolkit developed for interactive analyses of big biological data. Molecular Plant, 13, 1194–1202.
Chen K E, Chen H Y, Tseng C S, Tsay Y F. 2020. Improving nitrogen use efficiency by manipulating nitrate remobilization in plants. Nature Plants, 6, 1126–1135.
Cingolani P, Platts A, Wang le L, Coon M, Nguyen T, Wang L, Land S J, Lu X, Ruden D M. 2012. A program for annotating and predicting the effects of single nucleotide polymorphisms, SnpEff: SNPs in the genome of Drosophila melanogaster strain w1118; iso-2; iso-3. Fly (Austin), 6, 80–92.
Diaz C, Saliba-Colombani V, Loudet O, Belluomo P, Moreau L, Daniel-Vedele F, Morot-Gaudry J F, Masclaux-Daubresse C. 2006. Leaf yellowing and anthocyanin accumulation are two genetically independent strategies in response to nitrogen limitation in Arabidopsis thaliana. Plant and Cell Physiology, 47, 74–83.
Ding L, Wang K J, Jiang G M, Biswas D K, Xu H, Li L F, Li Y H. 2005. Effects of nitrogen deficiency on photosynthetic traits of maize hybrids released in different years. Annals of Botany, 96, 925–930.
Gao K, Chen F J, Yuan L X, Zhang F S, Mi G H. 2015. A comprehensive analysis of root morphological changes and nitrogen allocation in maize in response to low nitrogen stress. Plant Cell Environment, 38, 740–750.
Gao Y J, de Bang T C, Schjoerring J K. 2019. Cisgenic overexpression of cytosolic glutamine synthetase improves nitrogen utilization efficiency in barley and prevents grain protein decline under elevated CO2. Plant Biotechnology Journal, 17, 1209–1221.
Goel P, Sharma N K, Bhuria M, Sharma V, Chauhan R, Pathania S, Swarnkar M K, Chawla V, Acharya V, Shankar R, Singh A K. 2018. Transcriptome and co-expression network analyses identify key genes regulating nitrogen use efficiency in Brassica juncea L. Scientific Reports, 8, 7451.
Han Y L, Song H X, Liao Q, Yu Y, Jian S F, Lepo J E, Liu Q, Rong X M, Tian C, Zeng J, Guan C Y, Ismail A M, Zhang Z H. 2016. Nitrogen use efficiency is mediated by vacuolar nitrate sequestration capacity in roots of Brassica napus. Plant Physiology, 170, 1684–1698.
Havé M, Marmagne A, Chardon F, Masclaux-Daubresse C. 2016. Nitrogen remobilisation during leaf senescence: Lessons from Arabidopsis to crops. Journal of Experimental Botany, 10, 2513–2529.
Hu M Y, Zhao X Q, Liu Q, Hong X, Zhang W, Zhang Y J, Sun L J, Li H, Tong Y P. 2018. Transgenic expression of plastidic glutamine synthetase increases nitrogen uptake and yield in wheat. Plant Biotechnology Journal, 16, 1858–1867.
Hua Y P, Zhou T, Ding G D, Yang Q Y, Shi L, Xu F S. 2016. Physiological, genomic and transcriptional diversity in responses to boron deficiency in rapeseed genotypes. Journal of Experimental Botany, 67, 5769–5784.
Hua Y P, Zhou T, Liao Q, Song H X, Guan C Y, Zhang Z H. 2018. Genomics-assisted identification and characterization of the genetic variants underlying differential nitrogen use efficiencies in allotetraploid rapeseed genotypes. Genes, Genomes, Genetics, 8, 2757–2771.
Ihaka R, Gentleman R. 1996. R: A language for data analysis and graphics. Journal of Computational and Graphical Statistics, 5, 299–314.
Islam S, Zhang J J, Zhao Y, She M Y, Ma W J. 2021. Genetic regulation of the traits contributing to wheat nitrogen use efficiency. Plant Science, 303, 110759.
Kang L, Qian L W, Zheng M, Chen L Y, Chen H, Yang L, You L, Yang B, Yan M L, Gu Y G, Wang T Y, Schiessl S V, An H, Blischak P, Liu X J, Lu H F, Zhang D W, Rao Y, Jia D H, Zhou D G, et al. 2021. Genomic insights into the origin, domestication and diversification of Brassica juncea. Nature Genetics, 53, 1392–1402.
Kask K, Kannaste A, Talts E, Copolovici L, Niinemets U. 2016. How specialized volatiles respond to chronic and short-term physiological and shock heat stress in Brassica nigra. Plant Cell Environment, 39, 2027–2042.
Khator K, Shekhawat G S. 2020. Nitric oxide mitigates salt-induced oxidative stress in Brassica juncea seedlings by regulating ROS metabolism and antioxidant defense system. 3 Biotech, 10, 499.
Li M X, Xu J S, Wang X X, Fu H, Zhao M L, Wang H, Shi L X. 2018. Photosynthetic characteristics and metabolic analyses of two soybean genotypes revealed adaptive strategies to low-nitrogen stress. Journal of Plant Physiology, 229, 132–141.
Li P, Li Y J, Zhang F J, Zhang G Z, Jiang X Y, Yu H M, Hou B K. 2017. The Arabidopsis UDP-glycosyltransferases UGT79B2 and UGT79B3, contribute to cold, salt and drought stress tolerance via modulating anthocyanin accumulation. The Plant Journal, 89, 85–103.
Li Q, Ding G D, Yang N M, White P J, Ye X S, Cai H M, Lu J W, Shi L, Xu F S. 2020. Comparative genome and transcriptome analysis unravels key factors of nitrogen use efficiency in Brassica napus L. Plant Cell Environment, 43, 712–731.
Li X, Yang J, Shen M, Xie X L, Liu G J, Xu Y X, Lv F H, Yang H, Yang Y L, Liu C B, Zhou P, Wan P C, Zhang Y S, Gao L, Yang J Q, Pi W H, Ren Y L, Shen Z Q, Wang F, Deng J, et al. 2020. Whole-genome resequencing of wild and domestic sheep identifies genes associated with morphological and agronomic traits. Nature Communications, 11, 2815.
Liang G H, Hua Y P, Chen H F, Luo J S, Xiang H K, Song H X, Zhang Z H. 2023. Increased nitrogen use efficiency via amino acid remobilization from source to sink organs in Brassica napus. The Crop Journal, 11, 119–131.
Liang J, He J X. 2018. Protective role of anthocyanins in plants under low nitrogen stress. Biochemical and Biophysical Research Communications, 498, 946–953.
Liao H S, Yang C C, Hsieh M H. 2022. Nitrogen deficiency- and sucrose-induced anthocyanin biosynthesis is modulated by HISTONE DEACETYLASE15 in Arabidopsis. Journal of Experimental Botany, 73, 3726–3742.
Liu X J, Hu B, Chu C C. 2022. Nitrogen assimilation in plants: Current status and future prospects. Journal of Genetics and Genomics, 49, 394–404.
Liu Y Q, Wang H R, Jiang Z M, Wang W, Xu R N, Wang Q H, Zhang Z H, Li A F, Liang Y, Ou S J, Liu X J, Cao S Y, Tong H N, Wang Y H, Zhou F, Liao H, Hu B, Chu C C. 2021. Genomic basis of geographical adaptation to soil nitrogen in rice. Nature, 590, 600–605.
Martin A, Belastegui-Macadam X, Quillere I, Floriot M, Valadier M H, Pommel B, Andrieu B, Donnison I, Hirel B. 2005. Nitrogen management and senescence in two maize hybrids differing in the persistence of leaf greenness: Agronomic, physiological and molecular aspects. New Phytologist, 167, 483–492.
Martin A, Lee J, Kichey T, Gerentes D, Zivy M, Tatout C, Dubois F, Balliau T, Valot B, Davanture M, Terce-Laforgue T, Quillere I, Coque M, Gallais A, Gonzalez-Moro M B, Bethencourt L, Habash D Z, Lea P J, Charcosset A, Perez P, et al. 2006. Two cytosolic glutamine synthetase isoforms of maize are specifically involved in the control of grain production. The Plant Cell, 18, 3252–3274.
Medugorac I, Graf A, Grohs C, Rothammer S, Zagdsuren Y D, Gladyr E, Zinovieva N, Barbieri J, Seichter D, Russ I, Eggen A, Hellenthal G, Brem G, Blum H, Krebs S, Capitan A. 2017. Whole-genome analysis of introgressive hybridization and characterization of the bovine legacy of Mongolian yaks. Nature Genetics, 49, 470–475.
Mehra P, Pandey B K, Giri J. 2015. Genome-wide DNA polymorphisms in low Phosphate tolerant and sensitive rice genotypes. Scientific Reports, 5, 13090.
Meng J X, Gao Y, Han M L, Liu P Y, Yang C, Shen T, Li H H. 2020. In vitro anthocyanin induction and metabolite analysis in Malus spectabilis leaves under low nitrogen conditions. Horticultural Plant Journal, 6, 284–292.
Orsel M, Moison M, Clouet V, Thomas J, Leprince F, Canoy A S, Just J, Chalhoub B, Masclaux-Daubresse C. 2014. Sixteen cytosolic glutamine synthetase genes identified in the Brassica napus L. genome are differentially regulated depending on nitrogen regimes and leaf senescence. Journal of Experimental Botany, 65, 3927–3947.
Paritosh K, Yadava S K, Singh P, Bhayana L, Mukhopadhyay A, Gupta V, Bisht N C, Zhang J W, Kudrna D A, Copetti D, Wing R A, Reddy Lachagari V B, Pradhan A K, Pental D. 2020. A chromosome-scale assembly of allotetraploid Brassica juncea (AABB) elucidates comparative architecture of the A and B genomes. Plant Biotechnology Journal, 19, 602–614.
Pathak R R, Ahmad A, Lochab S, Raghuram N. 2008. Molecular physiology of plant nitrogen use efficiency and biotechnological options for its enhancement. Current Science, 94, 1394–1403.
Piovan A, Filippini R. 2007. Anthocyanins in Catharanthus roseus in vivo and in vitro: A review. Phytochemistry Reviews, 6, 235–242.
Quan X Y, Qian Q F, Ye Z L, Zeng J B, Han Z G, Zhang G P. 2016. Metabolic analysis of two contrasting wild barley genotypes grown hydroponically reveals adaptive strategies in response to low nitrogen stress. Journal of Plant Physiology, 206, 59–67.
Romero Navarro J A, Willcox M, Burgueno J, Romay C, Swarts K, Trachsel S, Preciado E, Terron A, Delgado H V, Vidal V, Ortega A, Banda A E, Montiel N O, Ortiz-Monasterio I, Vicente F S, Espinoza A G, Atlin G, Wenzl P, Hearne S, Buckler E S. 2017. A study of allelic diversity underlying flowering-time adaptation in maize landraces. Nature Genetics, 49, 476–480.
Russell J, Mascher M, Dawson I K, Kyriakidis S, Calixto C, Freund F, Bayer M, Milne I, Marshall-Griffiths T, Heinen S, Hofstad A, Sharma R, Himmelbach A, Knauft M, van Zonneveld M, Brown J W, Schmid K, Kilian B, Muehlbauer G J, Stein N, et al. 2016. Exome sequencing of geographically diverse barley landraces and wild relatives gives insights into environmental adaptation. Nature Genetics, 48, 1024–1030.
Savolainen O. 2011. The genomic basis of local climatic adaptation. Science, 334, 49–50.
Shi Y J, Liu D, He Y Q, Tang J, Chen H F, Gong P, Luo J S, Zhang Z H. 2023. CHLORIDE CHANNEL-b mediates vacuolar nitrate efflux to improve low nitrogen adaptation in Arabidopsis. Plant Physiology, 193, 1987–2002.
Simoes C, Brasil Bizarri C H, da Silva Cordeiro L, Carvalho de Castro T, Machado Coutada L C, Ribeiro da Silva A J, Albarello N, Mansur E. 2009. Anthocyanin production in callus cultures of Cleome rosea: Modulation by culture conditions and characterization of pigments by means of HPLC-DAD/ESIMS. Plant Physiology Biochemistry, 47, 895–903.
de Summa S, Malerba G, Pinto R, Mori A, Mijatovic V, Tommasi S. 2017. GATK hard filtering: Tunable parameters to improve variant calling for next generation sequencing targeted gene panel data. BMC Bioinformatics, 18, 119.
Swarbreck S M, Defoin-Platel M, Hindle M, Saqi M, Habash D Z. 2011. New perspectives on glutamine synthetase in grasses. Journal of Experimental Botany, 62, 1511–1522.
Thomsen H C, Eriksson D, Moller I S, Schjoerring J K. 2014. Cytosolic glutamine synthetase: A target for improvement of crop nitrogen use efficiency? Trends in Plant Science, 19, 656–663.
Vidal E A, Alvarez J M, Araus V, Riveras E, Brooks M D, Krouk G, Ruffel S, Lejay L, Crawford N M, Coruzzi G M, Gutierrez R A. 2020. Nitrate in 2020: Thirty years from transport to signaling networks. Plant Cell, 32, 2094–2119.
Wei Y H, Xiong S P, Zhang Z Y, Meng X D, Wang L L, Zhang X J, Yu M Q, Yu H D, Wang X C, Ma X M. 2021. Localization, gene expression, and functions of glutamine synthetase isozymes in wheat grain (Triticum aestivum L.). Frontiers in Plant Science, 12, 580405.
Xu G H, Fan X R, Miller A J. 2012. Plant nitrogen assimilation and use efficiency. Annual Review of Plant Biology, 63, 153–182.
Yang J H, Liu D Y, Wang X W, Ji C M, Cheng F, Liu B N, Hu Z Y, Chen S, Pental D, Ju Y H, Yao P, Li X M, Xie K, Zhang J H, Wang J L, Liu F, Ma W W, Shopan J, Zheng H K, Mackenzie S A, et al. 2016. The genome sequence of allopolyploid Brassica juncea and analysis of differential homoeolog gene expression influencing selection. Nature Genetics, 48, 1225–1232.
Zhang J H, Zhang H T, Li S Y, Li J Y, Yan L, Xia L Q. 2021. Increasing yield potential through manipulating of an ARE1 ortholog related to nitrogen use efficiency in wheat by CRISPR/Cas9. Journal of Integrative Plant Biology, 63, 1649–1663.
Zhang X B, Ding Y G, Ma Q, Li F J, Tao R R, Li T, Zhu M, Ding J F, Li C Y, Guo W S, Zhu X K. 2023. Comparative transcriptomic and metabolomic analysis revealed molecular mechanism of two wheat near-isogenic lines response to nitrogen application. Plant Physiology Biochemistry, 195, 47–57.
Zhou L L, Shi M Z, Xie D Y. 2012. Regulation of anthocyanin biosynthesis by nitrogen in TTG1-GL3/TT8-PAP1-programmed red cells of Arabidopsis thaliana. Planta, 236, 825–837.
Zhu H, Zhang T J, Zheng J, Huang X D, Yu Z C, Peng C L, Chow W S. 2018. Anthocyanins function as a light attenuator to compensate for insufficient photoprotection mediated by nonphotochemical quenching in young leaves of Acmena acuminatissima in winter. Photosynthetica, 56, 445–454.
|