Ansari MJ, Al-Ghamdi A, Kumar R, Usmani S, AL-Attal Y, Nuru A, Mohamed AA, Singh K, Dhaliwal HS (2012) Characterization and gene mapping of a chlorophyll-deficient mutant clm1 of Triticum monococcum L. Biol Plant 57(3):442–448
Bang WY, Jeong IS, Kim DW, Im CH, Ji C, Hwang SM, Kim SW, Son YS, Jeong J, Shiina T, Bahk JD (2008) Role of Arabidopsis CHL27 protein for photosynthesis, chloroplast development and gene expression profiling. Plant Cell Physiol 49(9):1350–1363
Barak S, Heimer Y, Nejidat A, Volkita M (2000) The peroxisomal glycolate oxidase gene is differentially expressed in yellow and white sectors of the DP1 variegated tobacco mutant. Physiol Plant 110(1):120–126
Chen H, Cheng Z, Ma X, Wu H, Liu Y, Zhou K, Chen Y, Ma W, Bi J, Zhang X, Guo X, Wang J, Lei C, Wu F, Lin Q, Liu Y, Liu L, Jiang L (2013) A knockdown mutation of YELLOW-GREEN LEAF2 blocks chlorophyll biosynthesis in rice. Plant Cell Rep 32(12):1855–1867
Chen P, Hu H, Zhang Y, Wang Z, Dong G, Cui Y, Qian Q, Ren D, Guo LB (2018) Genetic analysis and fine-mapping of a new rice mutant, white and lesion mimic leaf1. Plant Growth Regul 85(3):425–435
Colombo N, Emanuel C, Lainez V, Maldonado S, Prina AR, Börner T (2008) The barley plastome mutant CL2 affects expression of nuclear and chloroplast housekeeping genes in a cell-age dependent manner. Mol Gen Genomics 279(4):403–414
Davis SJ, Kurepa J, Vierstra RD (1999) The Arabidopsis thaliana HY1 locus, required for phytochrome-chromophore biosynthesis, encodes a protein related to heme oxygenases. Proc Natl Acad Sci 96(11):6541–6546
Despres B, Delseny M, Devic M (2001) Partial complementation of embryo defective mutations: a general strategy to elucidate gene function. Plant J 27(2):149–159
Emborg TJ, Walker JM, Noh B, Vierstra RD (2006) Multiple heme oxygenase family members contribute to the biosynthesis of the phytochrome chromophore in Arabidopsis. Plant Physiol 140(3):856–868
Fang C, Li C, Li W, Wang Z, Zhou Z, Shen Y, Wu M, Wu Y, Li G, Kong LA, Liu C, Jackson SA, Tian Z (2014) Concerted evolution of D1 and D2 to regulate chlorophyll degradation in soybean. Plant J 77(5):700–712
Franzmann LH, Yoon ES, Meinke DW (1995) Saturating the genetic map of Arabidopsis thaliana with embryonic mutations. Plant J 7(2):341–350
Frick G, Su Q, Apel K, Armstrong GA (2003) An Arabidopsis porB porC double mutant lacking light-dependent NADPH: protochlorophyllide oxidoreductases B and C is highly chlorophyll-deficient and developmentally arrested. Plant J 35(2):141–153
Fromme P, Melkozernov A, Jordan P, Krauss N (2003) Structure and function of photosystem I: interaction with its soluble electron carriers and external antenna systems. FEBS Lett 555(1):0–44
Gao M, Hu L, Li Y, Weng Y (2016) The chlorophyll-deficient golden leaf mutation in cucumber is due to a single nucleotide substitution in CsChlI for magnesium chelatase I subunit. Theor Appl Genet 129(10):1961–1973
Huang S, Liu Z, Yao R, Li D, Feng H (2015) Comparative transcriptome analysis of the petal degeneration mutant pdm in Chinese cabbage (Brassica campestris ssp.pekinensis) using RNA-Seq. Mol Genet Genomics 290(5):1833–1847
Huang S, Liu Z, Yao R, Li D, Zhang T, Li X, Hou L, Wang Y, Tang X, Feng H (2016) Candidate gene prediction for a petal degeneration mutant, pdm, of the Chinese cabbage (Brassica campestris, ssp. pekinensis) by using fine mapping and transcriptome analysis. Mol Breed 36(3):26–35
Hui Z, Tian FX, Wang GK, Wang GP, Wang W (2012) The antioxidative defense system is involved in the delayed senescence in a wheat mutant tasg1. Plant Cell Rep 31(6):1073–1084
Jander G, Norris SR, Rounsley SD, Bush DF, Levin IM, Last RL (2002) Arabidopsis map-based cloning in the post-genome era. Plant Physiol 129(2):440–450
Jarvis P, Dörmannn Peter, Peto CA, Lutes J, Benning C, Chory J (2000) Galactolipid deficiency and abnormal chloroplast development in the Arabidopsis MGD synthase 1 mutant. Proc Natl Acad Sci 97(14):8175–8179
Jung KH, Hur J, Ryu CH, Choi Y, Chung YY, Miyao A, Hirochika H, An G (2003) Characterization of a rice chlorophyll-deficient mutant using the T-DNA gene-trap system. Plant Cell Physiol 44(5):463–472
Kim D, Langmead B, Salzberg SL (2015) HISAT: a fast spliced aligner with low memory requirements. Nat Methods 12(4):357–362
Kosambi DD (1944) The estimation of map distance from recombination values. Ann Eugen 12(1):172–175
Kurata N, Miyoshi K, Nonomura KI, Yamazaki Y, Ito Y (2005) Rice mutants and genes related to organ development, morphogenesis and physiological traits. Plant Cell Physiol 46(1):48–62
Kusaba M, Ito H, Morita R, Iida S, Sato Y, Fujimoto M, Kawasaki S, Tanaka R, Hirochika H, Nishimura M, Tanaka A (2007) Rice NON-YELLOW COLORING1 is involved in light-harvesting complex II and grana degradation during leaf senescence. Plant Cell 19(4):1362–1375
Lee YP, Cho Y, Kim S (2014) A high-resolution linkage map of the Rfd1, a restorer-of-fertility locus for cytoplasmic male sterility in radish (Raphanus sativus L.) produced by a combination of bulked segregant analysis and RNA-Seq. Theor Appl Genet 127(10):2243–2252
Li N, Jia J, Xia C, Liu X and Kong X (2013) Characterization and mapping of novel chlorophyll deficient mutant genes in durum wheat. Breed Sci 63(2):169–175
Li Q, Zhu FY, Gao X, Sun Y, Li S, Tao Y, Lo C, Liu H (2014) Young leaf chlorosis 2, encodes the stroma-localized heme oxygenase 2 which is required for normal tetrapyrrole biosynthesis in rice. Planta 240(4):701–712
Li Z, Thomas LT (1998) PEI1, an embryo-specific zinc finger protein gene required for heart-stage embryo formation in Arabidopsis. Plant Cell 10(3):383–398
Linley PJ, Landsberger M, Kohchi T, Cooper JB, Terry MJ (2006) The molecular basis of heme oxygenase deficiency in the pcd1mutant of pea. Febs J 273(12):2594–2606
Liu XP, Yang C, Han FQ, Fang ZY, Yang LM, Zhuang M, Lv HH, Liu YM, Li ZS, Zhang YY (2016) Genetics and fine mapping of a yellow-green leaf gene (ygl-1) in cabbage (Brassica oleracea var. capitata L.). Mol Breed 36(6):82–89
Livak KJ, Schmittgen TD (2001) Analysis of relative gene expression data using real-time quantitative PCR and the 2−ΔΔCt method. Methods 25(4):402–408
Lu H, Lin T, Klein J, Wang S, Qi J, Zhou Q, Sun J, Zhang Z, Weng Y, Huang S (2014) QTL-seq identifies an early flowering QTL located near Flowering Locus T in cucumber. Theor Appl Genet 127(7):1491–1499
Moon S, Giglione C, Lee DY, An S, Jeong DH, Meinnel T, An G (2008) Rice peptide deformylase PDF1B is crucial for development of chloroplasts. Plant Cell Physiol 49(10):1536–1546
Morita R, Sato Y, Masuda Y, Nishimura M, Kusaba M (2009) Defect in non-yellow coloring 3, an alpha/beta hydrolase-fold family protein, causes a stay green phenotype during leaf senescence in rice. Plant J 59(6):940–952
Motohashi K, Koyama F, Nakanishi Y, Ueoka-Nakanishi H, Hisabori T (2003) Chloroplast Cyclophilin is a target protein of thioredoxin THIOL MODULATION OF THE PEPTIDYL-PROLYL CIS-TRANS ISOMERASE ACTIVITY. J Biol Chem 278(34):31848–31852
Mortazavi A, Williams BA, McCue K, Schaeffer L, Wold B (2008) Mapping and quantifying mammalian transcriptomes by RNA-Seq. Nat Methods 5(7):621–628
Mueller AH, Dockter C, Gough SP, Lundqvist U, von Wettstein D, Hansson M (2012) Characterization of mutations in barley fch2 encoding chlorophyllide a oxygenase. Plant Cell Physiol 53:1232–1246
Murray MG, Thompson WF (1980) Rapid isolation of high molecular weight plant DNA. Nucleic Acids Res 8(19):4321–4326
Nagata N, Tanaka R, Satoh S, Tanaka A (2005) Identification of a vinyl reductase gene for chlorophyll synthesis in Arabidopsis thaliana and implications for the evolution of Prochlorococcus Species. Plant Cell 17(1):233–240
Nestler J, Liu S, Wen TJ, Paschold A, Marcon C, Tang HM, Li D, Li L, Meeley RB, Sakai H, Bruce W, Schnable PS, Hochholdinger F (2014) Roothairless5, which functions in maize (Zea mays L.) root hair initiation and elongation encodes a monocot-specific NADPH oxidase. Plant J 79(5):729–740
Ortiz de Montellano PR, Wilks A (2000) Heme oxygenase structure and mechanism. Adv Inorg Chem 51(1):359–407
Patton DA, Franzmann LH, Meinke DW (1991) Mapping genes essential for embryo development in Arabidopsis thaliana. Mol Gen Genet 227(3):337–347
Quail P (2002) Phytochrome photosensory signalling networks. Nat Rev Mol Cell Biol 3(2):85–93
Ramirez-Gonzalez RH, Segovia V, Bird N, Fenwick P, Holdgate S, Berry S, Jack P, Caccamo M, Uauy C (2015) RNA-seq bulked segregant analysis enables the identification of high-resolution genetic markers for breeding in hexaploid wheat. Plant Biotechnol J 13(5):613–624
Sang XC, Fang LK, Vanichpakorn Y, Ling YH, Du P, Zhao FM, Yang ZL, He GH (2010) Physiological character and molecular mapping of leaf-color mutant wyv1 in rice (Oryza sativa L.). Genes Genomics 32(2):123–128
Schneeberger K, Weigel D (2011) Fast-forward genetics enabled by new sequencing technologies. Trends in Plant Sci 16(5):282–288
Schultes NP, Sawers RJH, Brutnell TP, Krueger RW (2000) Maize high chlorophyll fluorescent 60 mutation is caused by an Ac disruption of the gene encoding the chloroplast ribosomal small subunit protein 17. Plant J 21(4):317–327
Shen Y, Li C, McCarty DR, Meeley R, Tan BC (2013) Embryo defective12 encodes the plastid initiation factor 3 and is essential for embryogenesis in maize. Plant J 74(5):792–804
Sheng Z, Lv Y, Li W, Luo R, Wei X, Xie L, Jiao G, Shao G, Wang J, Tang S, Hu P (2017) Yellow-Leaf 1 encodes a magnesium-protoporphyrin IX monomethyl ester cyclase, involved in chlorophyll biosynthesis in rice (Oryza sativa L.). PLoS ONE 12(5):e0177989
Shi D, Zheng X, Li L, Lin W, Xie W, Yang J, Chen S, Jin W (2013) Chlorophyll deficiency in the maize elongated mesocotyl2 mutant is caused by a defective heme oxygenase and delaying grana stacking. PLoS One 8(11):e80107
Song M, Wei Q, Wang J, Fu W, Qin X, Lu X, Cheng F, Yang K, Zhang L, Yu X, Li J, Chen J, Lou Q (2018) Fine mapping of CsVYL, conferring virescent leaf through the regulation of chloroplast development in cucumber. Front Plant Sci 9:432–443
Song M, Yang Z, Fan S, Zhu H, Pang C, Tian M, Yu S (2012) Cytological and genetic analysis of a virescent mutant in upland cotton (Gossypium hirsutum L.). Euphytica 187(2):235–245
Stern DB, Hanson MR, Barkan A (2004) Genetics and genomics of chloroplast biogenesis: Maize as a model system. Trends Plant Sci 9(6):293–301
Su A, Song W, Xing J, Zhao Y, Zhang R, Li C, Duan M, Luo M, Shi Z, Zhao J (2016) Identification of genes potentially associated with the fertility instability of s-type cytoplasmic male sterility in maize via bulked segregant RNA-Seq. Plos One 11(9):e0163489
Tan C, Liu Z, Huang S, Feng H (2019) Mapping of the male sterile mutant gene ftms in Brassica rapa L. ssp. pekinensis via BSR-Seq combined with whole-genome resequencing. Theor Appl Genet 132(2):355–370
Tang HM, Liu S, Hill-Skinner S, Wu W, Reed D, Yeh CT, Nettleton D, Schnable PS (2014) The maize brown midrib2 (bm2) gene encodes a methylenetetrahydrofolate reductase that contributes to lignin accumulation. Plant J 77(3):380–392
Tang X, Wang Y, Zhang Y, Huang S, Liu Z, Fei D, Feng H (2018) A missense mutation of plastid RPS4 is associated with chlorophyll deficiency in Chinese cabbage (Brassica campestris ssp. pekinensis). BMC Plant Biol 18(1):130–140
Terry MJ, Kendrick RE (1999) Feedback inhibition of chlorophyll synthesis in the phytochrome chromophore-deficient aurea and yellow-green-2 mutants of tomato. Plant Physiol 119(1):143–152
Terry MJ, Maines MD, Lagarias JC (1993) Inactivation of phytochrome- and phycobiliprotein-chromophore precursors by rat liver biliverdin reductase. J Biol Chem 268(35):26099–26106
Tian Y, Huang Q, Liu H, Wang J, An R, Liu X, Hu W (2012) Inheritance of chlorophyll-deficient mutant L638-y in Brassica juncea L. and molecular markers for chlorophyll-deficient gene gr1. J Northwest Agric Forest Univ (Nat Sci Ed) 40(12): 90-96 (in Chinese)
Trick M, Adamski NM, Mugford SG, Jiang CC, Febrer M, Uauy C (2012) Combining SNP discovery from next-generation sequencing data with bulked segregant analysis (BSA) to fine-map genes in polyploid wheat. BMC Plant Biol 12(1):14–30
Van Ooijen J (2006) Joinmap 4.0 software for the calculation of genetic linkage maps in experimental populations. Wageningen, Kyazma BV
Wang N, Liu Z, Zhang Y, Li C, Feng H (2018) Identification and fine mapping of a stay-green gene (Brnye1) in pakchoi (Brassica campestris L. ssp. chinensis). Theor Appl Genet 131(3):673–684
Wang P, Gao J, Wan C, Zhang F, Xu Z, Huang X, Sun X, Deng X (2010) Divinyl chlorophyll (ide) a can be converted to monovinyl chlorophyll (ide) a by a divinyl reductase in rice. Plant Physiol 153(3):994–1003
Weller JL, Terry MJ, Rameau C, Reid JB, Kendrick RE (1996) The phytochrome-deficient pcd1 mutant of pea is unable to convert heme to biliverdin IXα. Plant Cell 8(1):55–67
Wu Q, Wu X, Zhang X, Jiang C, Xiao B, Zhang Y, Wang Y, Liu G (2014) Mapping of two white stem genes in tetraploid common tobacco (Nicotiana tabacum L.). Mol Breed 34(3):1065–1074
Wu Z, Zhang X, He B, Diao L, Sheng S, Wang J, Guo X, Su N, Wang L, Jiang L, Wang C, Zhai H, Wan J (2007) A chlorophyll-deficient rice mutant with impaired chlorophyllide esterification in chlorophyll biosynthesis. Plant Physiol 145(1):29–40
Xie K, Wu S, Li Z, Zhou Y, Zhang D, Dong Z, An X, Zhu T, Zhang S, Liu S, Li J, Wan X (2018) Map-based cloning and characterization of Zea mays male sterility33 (ZmMs33) gene, encoding a glycerol-3-phosphate acyltransferase. Theor Appl Genet 131(6):1363–1378
Xie YJ, Xu DK, Cui WT, Shen WB (2012) Mutation of Arabidopsis HY1 causes UV-C hypersensitivity by impairing carotenoid and flavonoid biosynthesis and the down-regulation of antioxidant defence. J Exp Bot 63(10):3869–3883
Xu S, Wang L, Zhang B, Han B, Xie Y, Yang J, Zhong W, Chen H, Wang R, Wang N, Cui W, Shen W (2012) RNAi knockdown ofrice SE5 gene is sensitive to the herbicide methyl viologen by the down-regulation of antioxidant defense. Plant Mol Biol 80(2):219–235
Yoo SC, Cho SH, Zhang H, Paik HC, Lee CH, Li J, Yoo JH, Lee BW, Koh HJ, Seo HS, Paek NC (2007) Quantitative trait loci associated with functional stay green SNU-SG1 in rice. Mol Cells 24(1):83–94
Zhang K, Liu Z, Shan X, Li C, Tang X, Chi M, Feng H (2017) Physiological properties and chlorophyll biosynthesis in a Pak-choi (Brassica rapa, L. ssp. chinensis) yellow leaf mutant, pylm. Acta Physiol Plant 39(1):22–32
Zhang H, Li J, Yoo JH, Yoo SC, Cho SH, Koh HJ, Seo HS, Paek NC (2006) Rice Chlorina-1 and Chlorina-9 encode ChlD and ChlI subunits of Mg-chelatase, a key enzyme for chlorophyll synthesis and chloroplast development. Plant Mol Biol 62(3):325–337
Zhao H, Yu L, Huai Z, Wang X, Ding G, Chen S, Li P, Xu F (2014) Mapping and candidate gene identification defining BnChd1-1, a locus involved in chlorophyll biosynthesis in Brassica napus. Acta Physiol Plant 36(4):859–870
Zhou S, Hu Z, Zhu M, Zhang B, Deng L, Pan Y, Chen G (2013) Biochemical and molecular analysis of a temperature-sensitive albino mutant in kale named “White Dove”. Plant Growth Regul 71(3):281–294
Zhu L, Zeng X, Chen Y, Yang Z, Qi L, Pu Y, Yi B, Wen J, Ma C, Shen J, Tu J, Fu T (2014) Genetic characterisation and fine mapping of a chlorophyll-deficient mutant (BnaC.ygl) in Brassica napus. Mol Breed 34(2):603–614