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Molecular Markers and Their Role in Producing Salt-Tolerant Crop Plants

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Salinity Responses and Tolerance in Plants, Volume 1

Abstract

Besides drought and temperature, soil salinity is a severe abiotic environmental constraint to world agriculture, widely affecting yield and quality of crops. Increasing world population and simultaneous depletion of agricultural land created an alarming situation to meet the global food requirement. To meet this demand, it is imperative to utilize salt-affected land for agricultural produce. Researchers are actively engaged in developing salt-tolerant crop varieties using both conventional and molecular breeding technologies. Identification of salt-tolerant crop varieties using physiological and biochemical indices has become a routine technique in many laboratories. However, screening for salinity tolerance based on these indices relative to unstressed controls is labor-intensive and time-consuming. Moreover, results produced using these screening techniques are subjected to fluctuation in environmental conditions. In recent years, DNA-based molecular marker technique has been developed for screening salinity tolerance in crops. Molecular markers such as RFLP (restriction fragment length polymorphism), RAPD (random amplified polymorphic DNA), AFLP (amplified fragment length polymorphism), SSRs (simple sequence repeats), SRAP (sequence-related amplified polymorphism), ILPs (intron length polymorphism), and EST-SSRs (expressed sequence tags and simple sequence repeats) have been proven useful for rapid and sensitive screening of germplasm for salinity tolerance. However, raid advances in high-throughput sequencing technology make single-nucleotide polymorphism (SNP) become the marker of choice for salinity tolerance studies. Identification of genomic regions associated with salinity stress tolerance is of great significance which offers new avenues in marker-assisted selection breeding program. Molecular marker-assisted breeding may help in advancing fundamental understanding of salinity tolerance in crops. This book chapter provides a comprehensive review on the role of molecular markers as selection criteria for salinity stress tolerance in plants.

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Abbreviations

AFLP:

Amplified length polymorphism

ESTs:

Expressed sequence tags

ISSRs:

Inter-simple sequence repeats

MAS:

Marker-assisted selection

QTL:

Quantitative trait loci

RAPD:

Rapid amplified polymorphic DNA

RFLP:

Restriction fragment length polymorphism

SNP:

Single-nucleotide polymorphism

SRAP:

Sequence-related amplified polymorphism

SSRs:

Simple sequence repeats

ST:

Salinity tolerance

References

  • Aghaei K, Ehsanpour AA, Balali G, Mostajeran A (2008) In vitro screening of potato (Solanum tuberosum L.) cultivars for salt tolerance using physiological parameters and RAPD analysis. American-Eurasian J Agric Environ Sci 3:159–164

    Google Scholar 

  • Ali Md N, Yeasmin K, Gantait S, Goswami R, Chakraborty S (2014) Screening of rice landraces for salinity tolerance at seedling stage through morphological and molecular markers. Physiol Mol Biol Plants 20:411–423

    Article  PubMed  Google Scholar 

  • Amin AY, Diab AA (2013) QTL mapping of wheat (Triticum aestivum L.) in response to salt stress. Int J Biotechnol Res 3:47–60

    Google Scholar 

  • Andersen J, Lubberstedt T (2003) Functional markers in plants. Trends Plant Sci 18:554–560

    Article  Google Scholar 

  • Ashraf M, Foolad MR (2013) Crop breeding for salt tolerance in the era of molecular markers and marker-assisted selection. Plant Breed 132:10–20

    Article  Google Scholar 

  • Ashraf M, Akram M, Foolad MR (2012) Marker-assisted selection in plant breeding for salinity tolerance. In: Shabala S, Cuin TA (eds) Plant salt tolerance methods and protocols, methods in molecular biology. Springer/Humana press, Hatfield, Hertfordshire, UK, pp 305–334

    Google Scholar 

  • Baby J, Jini D, Sujatha S (2010) Biological and physiological perspectives of specificity in abiotic salt stress response from various rice plants. Asian J Agri Sci 2:99–105

    Google Scholar 

  • Bagge M, Lubberstedt T (2008) Functional markers in wheat: technical and economic aspects. Mol Breed 22:319–328

    Article  Google Scholar 

  • Barchi L, Lanteri S, Portis E, Acquadro A, Valè G, Toppino L, Gl R (2011) Identification of SNP and SSR markers in eggplant using RAD tag sequencing. BMC Genomics 12:304

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Bimpong IK, Manneh B, Diop B, Ghislain K, Sow A, Amoah NKA et al (2014a) New quantitative trait loci for enhancing adaptation to salinity in rice from Hasawi, a Saudi landrace into three African cultivars at the reproductive stage. Euphytica 200:45–60

    Article  CAS  Google Scholar 

  • Bimpong IK, Manneh B, Namaky R, Diaw F, Amoah NKA, Sanneh B et al (2014b) Mapping QTLs related to salt tolerance in rice at the young seedling stage using 384-plex single nucleotide polymorphism SNP, marker sets. Mol Plant Breed 5:47–63

    Google Scholar 

  • Bizimana JB, Luzi-Kihupi A, Murori RW, Singh RK (2017) Identification of quantitative trait loci for salinity tolerance in rice (Oryza sativa L.) using IR29/Hasawi mapping population. J Genet 96:571–582

    Article  CAS  PubMed  Google Scholar 

  • Bonilla P, Dvorak J, Mackill D, Deal K, Gregorio G (2002) RFLP and SSLP mapping of salinity tolerance genes in chromosome 1 of rice (Oryza sativa L.) using recombinant inbred lines. Philipp Agric Sci 85:68–76

    Google Scholar 

  • Botstein D, White RL, Skolnick M, Davis RW (1980) Construction of a genetic linkage map in man using restriction fragment length polymorphisms. Am J Hum Genet 32:314–331

    Google Scholar 

  • Braglia L, Manca A, Mastromauro F, Breviario D (2010) cTBP: a successful intron length polymorphism (ILP)-based genotyping method targeted to well-defined experimental needs. Diversity 2:572–585

    Article  CAS  Google Scholar 

  • Byrt CS, Platten JD, Spielmeyer W, James RA, Lagudah ES, Dennis ES, Tester M, Munns R (2007) HKT1;5-like cation transporters linked to Na+ exclusion loci in wheat, Nax2 and Kna1. Plant Physiol 143:1918–1928

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Cai C, Wu S, Niu E, Cheng C, Guo W (2017) Identification of genes related to salt stress tolerance using intron-length polymorphic markers, association mapping and virus-induced gene silencing in cotton. Sci Rep 7:528

    Article  PubMed  PubMed Central  Google Scholar 

  • Chen ZH, Zhou MX, Newman IA, Mendham NJ, Zhang GP, Shabala S (2007) Potassium and sodium relations in salinised barley tissues as a basis of differential salt tolerance. Funct Plant Biol 34:150–162

    Article  CAS  Google Scholar 

  • Choi HK, Kim DJ, Uhm T, Limpens E, Lim H, Mun J-H, Kalo P, Penmetsa RV, Seres A, Kulikova O, Roe BA, Bisseling T, Kiss GB, Cook DR (2004) A sequence-based genetic map of Medicago truncatula and comparison of marker colinearity with M. sativa. Genetics 166:1463–1502

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Collard BC, Mackill DJ (2008) Marker-assisted selection: an approach for precision plant breeding in the twenty first century. Philos Trans R Soc Lond Ser B Biol Sci 363:557–572

    Article  CAS  Google Scholar 

  • Cuadrado A, Schwarzacher T (1998) The chromosomal organization of simple sequence repeats in wheat and rye genomes. Chromosoma 107:587–594

    Article  CAS  PubMed  Google Scholar 

  • De Leon TB, Linscombe S, Subudhi PK (2016) Identification and validation of QTLs for seedling salinity tolerance in introgression lines of a salt tolerant rice landrace ‘Pokkali’. PLoS One. https://doi.org/10.1371/journal.pone.0175361

  • DeRose-Wilson L, Gaut BS (2011) Mapping salinity tolerance during Arabidopsis thaliana germination and seedling growth. PLoS One 6. https://doi.org/10.1371/journal.pone.0022832

  • Du L, Cai C, Wu S, Zhang F, Hou S, Gua W (2016) Evaluation and exploration of favorable QTL alleles for salt stress related traits in cotton cultivars (G. hirsutum L.) PLoS One 11:e0151076

    Article  PubMed  PubMed Central  Google Scholar 

  • Dubcovsky J, Santa Marı́a G, Epstein E, Luo MC, Dvorak J (1996) Mapping of the K+/Na+ discrimination locus Kna1in wheat. Theor Appl Genet 92:448–454

    Article  CAS  PubMed  Google Scholar 

  • Foolad MR (2006) Tolerance to abiotic stresses. In: Razdan MK, Mattoo AK (eds) Genetic improvement of solanaceous crops, vol Volume 2, Tomato. CRC Press, Taylor and Francis, pp 521–592

    Google Scholar 

  • Foolad MR, Chen FQ, Lin GY (1998) RFLP mapping of QTLs conferring salt tolerance during germination in an interspecific cross of tomato. Theor Appl Genet 97:1133–1144

    Article  CAS  Google Scholar 

  • Ganal MW, Polley A, Graner EM, Plieske J, Wieseke R, Luerssen H, Durstewitz G (2012) Large SNP arrays for genotyping in crop plants. J Bioscience 37:821–828

    Article  CAS  Google Scholar 

  • Gharsallah C, Abdelkrim AB, Fakhfakh H, Salhi-Hannachi A, Gorsane F (2016) SSR marker-assisted screening of commercial tomato genotypes under salt stress. Breed Sci 66:823–830

    Article  PubMed  PubMed Central  Google Scholar 

  • Ghomi K, Rabiei B, Sabouri H, Sabouri A (2013) Mapping QTLs for traits related to salinity tolerance at seedling stage of Rice (Oryza sativa L.): an Agrigenomics study of an Iranian Rice population. OMICS Int J Integr Biol 17:242–251

    Article  CAS  Google Scholar 

  • Greenway H, Munns R (1980) Mechanism of salt tolerance in nonhalophytes. Annu Rev Plant Physiol 31:149–190

    Article  CAS  Google Scholar 

  • Gregorio GB, Senadhira D, Mendoza RD, Manigbas NL, Roxas JP, Guerta CQ (2002) Progress in breeding for salinity tolerance and associated abiotic stresses in rice. Field Crop Res 76:91–101

    Article  Google Scholar 

  • Gupta B, Huang B (2014) Mechanism of salinity tolerance in plants: physiological, biochemical, and molecular characterization. Int J Genomics 2014. https://doi.org/10.1155/2014/701596

  • Gupta S, Kumari K, Das J, Lata C, Puranik S, Prasad M (2011) Development and utilization of novel intron length polymorphic markers in foxtail millet (Setaria italica (L.) P. Beauv.) Genome 54:586–602

    Article  CAS  PubMed  Google Scholar 

  • Gupta SK, Bansal R, Gopalakrishna T (2012) Development of intron length polymorphism markers in cowpea [Vigna unguiculata (L.) Walp.] and their transferability to other Vigna species. Mol Breed 30:1363–1370

    Article  CAS  Google Scholar 

  • Hanin M, Ebel C, Ngom M, Laplaze L, Masmoudi K (2016) New insights on plant salt tolerance mechanisms and their potential use for breeding. Frontiers in. Plant Sci 6. https://doi.org/10.3389/fpls.2016.01787

  • Haq TU, Gorham J, Akhtar J, Akhtar N, Steele KA (2010) Dynamic quantitative trait loci for salt stress components on chromosome 1 of rice. Funcl. Plant Biol 37:634–645

    Google Scholar 

  • Heiskanen J (2006) Estimated aboveground tree biomass and leaf area index in a mountain birch forest using ASTER satellite data. Int J Remote Sens 27:1135–1158

    Article  Google Scholar 

  • Hussain B, Lucas SJ, Ozturk L, Budak H (2017) Mapping QTLs conferring salt tolerance and micronutrient concentrations at seedling stage in wheat. Sci Report 7:15662. https://doi.org/10.1038/s41598-017-15726-6

    Article  Google Scholar 

  • Islam MR, Salam MA, Hassan L, Collard BCY, Singh RK, Gregorio GB (2011) QTL mapping for salinity tolerance at seedling stage in rice. Emir J Food Agric 23:137–146

    Article  Google Scholar 

  • Jaikishan I, Rajendrakumar P, Madhusudhana R, Elangovan M, Patil JV (2015) Development and utility of PCR-based intron polymorphism markers in sorghum [Sorghum bicolor (L.) Moench]. J Crop Sci Biotechnol 18:309–318

    Article  Google Scholar 

  • Jain M, Moharana KC, Shankar R, Kumari R, Garg R (2014) Genome wide discovery of DNA polymorphisms in rice cultivars with contrasting drought and salinity stress response and their functional relevance. Plant Biotechnol J 12:253–264

    Article  CAS  PubMed  Google Scholar 

  • James RA, Davenport RJ, Munns R (2006) Physiological characterization of two genes for Na+ exclusion in durum wheat: Nax1 and Nax2. Plant Physiol 142:1537–1547

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Kalia RK, Rai MK, Kalia S, Singh R, Dhawan AK (2011) Microsatellite markers: an overview of the recent progress in plants. Euphytica 177:309–334

    Article  CAS  Google Scholar 

  • Khalil RMA (2013) Molecular and biochemical markers associated with salt tolerance in some Sorghum genotypes. World Appl Sci J 22:459–469

    CAS  Google Scholar 

  • Khatab IA, Samah MA (2013) Development of agronomical and molecular genetic markers associated with salt stress tolerance in some barley genotypes. Curr Res J Biol Sci 5:198–204

    Google Scholar 

  • Khlestkina EK (2014) Molecular markers in genetic studies and breeding. App Res 2014, 4:236–244

    Google Scholar 

  • Krishnamurthy SL, Sharma PC, Sharma SK, Batra V, Kumar V, Rao LVS, (2016) Effect of salinity and use of stress indices of morphological and physiological traits at the seedling stage in rice. Indian J Exper Biol 54:843–850

    Google Scholar 

  • Kruglyak L (1997) The use of a genetic map of biallelic markers in linkage studies. Nat Genet 17:21–24

    Article  CAS  PubMed  Google Scholar 

  • Kujur A, Upadhyaya HD, Bajaj D, Gowda CLL, Sharma S, Tyagi AK, Parida SK (2016) Identification of candidate genes and natural allelic variants for QTLs governing plant height in chickpea. Sci Rep 6:27968. https://doi.org/10.1038/srep27968

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Kumar V, Singh A, Amitha Mithra SV, Krishnamurthy SL, Parida SK, Jain S et al (2015) Genome-wide association mapping of salinity tolerance in rice (Oryza sativa). DNA Res 22:133–145

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Lateef DD (2015) DNA marker technologies in plants and applications for crop improvements. J Biosci Med 3:7–18

    CAS  Google Scholar 

  • Läuchli A, Grattan SR (2007) The plant growth and development under salinity stress. In: Jenks MA et al (eds) Advances in molecular breeding toward drought and salt tolerant crops. The Netherlands, Springer, pp 1–32

    Google Scholar 

  • Lee SY, Ahn JH, Cha YS, Yun DW, Lee MC, Ko JC et al (2006) Mapping of quantitative trait loci for salt tolerance at the seedling stage in rice. Mol Cells 21:192–196

    CAS  PubMed  Google Scholar 

  • Leonforte A, Sudheesh S, Cogan NOI, Salisbury PA, Nicolas ME, Materne M, Forster JW, Kaur S (2013) SNP marker discovery, linkage map construction and identification of QTLs for enhanced salinity tolerance in field pea (Pisum sativum L.) BMC Plant Biol 13:161

    Article  PubMed  PubMed Central  Google Scholar 

  • Li G, Quiros CF (2001) Sequence-related amplified polymorphism (SRAP). A new marker system based on a simple PCR reaction: its application to mapping and gene tagging in Brassica. Theor Appl Genet 103:455–461

    Article  CAS  Google Scholar 

  • Li C, Zhang G, Lance R (2007) Recent advances in breeding barley for drought and saline stress tolerance. In: Jenks MA et al (eds) Advances in molecular breeding toward drought and salt tolerant crops. Springer, The Netherlands, pp 603–626

    Google Scholar 

  • Li J, Liu L, Bai Y, Zhang P, Finkers R, Du Y et al (2011) Seedling salt tolerance in tomato. Euphytica 178:403–414

    Article  Google Scholar 

  • Lin HX, Zhu MZ, Yano M, Gao JP, Liang ZW, Su WA et al (2004) QTLs for Na+ and K+ uptake of the shoots and roots controlling rice salt tolerance. Theor Appl Genet 108:253–260

    Article  CAS  PubMed  Google Scholar 

  • Lindsay MP, Lagudah ES, Hare RA, Munns R (2004) A locus for sodium exclusion (Nax1), a trait for salt tolerance, mapped in durum wheat. Funct Plant Biol 31:1105–1114

    Article  CAS  Google Scholar 

  • Liu Y, He Z, Appels R, Xia X (2012) Functional markers in wheat: current status and future prospects. Theor Appl Genet 125:1–10

    Article  CAS  PubMed  Google Scholar 

  • Liu X, Fan Y, Mak M, Babla M, Holford P et al (2017) QTLs for stomatal and photosynthetic traits related to salinity tolerance in barley. BMC Genomics 18:9. https://doi.org/10.1186/s12864-016-3380-0

    Article  PubMed  PubMed Central  Google Scholar 

  • Luo M, Zhao Y, Zhang R, Xing J, Duan X, Li J et al (2017) Mapping of a major QTL for salt tolerance of mature field-grown maize plants based on SNP markers. BMC Plant Biol 17:140

    Article  PubMed  PubMed Central  Google Scholar 

  • Machado RMA, Serralheiro RP (2017) Soil salinity: effect on vegetable crop growth. Management practices top and mitigate soil salinization. Horticulturae 3:30. https://doi.org/10.3390/horticulturae3020030

    Article  Google Scholar 

  • Mammadov J, Aggarwal R, Buyyarapu R, Kumpatla S (2012) SNP markers and their impact on plant breeding. Int J Plant Genomics 2012. https://doi.org/10.1155/2012/728398

  • Mano Y, Takeda K (1997) Mapping quantitative trait loci for salt tolerance at germination and the seedling stage in barley (Hordeum vulgare L.) Euphytica 94:263–272

    Article  Google Scholar 

  • Mardani Z, Rabiei B, Sabouri H, Sabouri A (2014) Identification of molecular markers linked to salt-tolerant genes at germination stage of rice. Plant Breed 133:196–202

    Article  CAS  Google Scholar 

  • Martinez-Beltran J,Manzur CL(2005) Overview of salinity problems in the world and FAO strategies to address the problem. In Proceedings of International Salinity Forum, Riverside, California, pp 311–313

    Google Scholar 

  • Masood MS, Seiji Y, Shinwari ZK, Anwar R (2004) Mapping quantitative trait loci (QTLs) for salt tolerance in rice (Oryza sativa) using RFLPs. Pak J Bot 36:825–834

    Google Scholar 

  • Masuka B, Araus JL, Das B, Sonder K, Cairns JE (2012) Phenotyping for abiotic stress tolerance in maize. J Integr Plant Biol 54:238–249

    Article  CAS  PubMed  Google Scholar 

  • Ming-zhe Y, Jian-fei W, Hong-you C, Hu-qu Z, Hongsheng Z (2005) Inheritance and QTL mapping of salt tolerance in rice. Rice Sci 2:25–32

    Google Scholar 

  • Mondal U, Khanom MSR, Hassan L, Begum SN (2013) Foreground selection through SSRs markers for the development of salt tolerant rice variety. J Bangladesh Agri Univ 11:67–72

    Google Scholar 

  • Munns R, Tester M (2008) Mechanisms of salinity tolerance. Ann Rev Plant Biol 59:651–681

    Article  CAS  Google Scholar 

  • Oluoch G, Zheng J, Wang X, Khan MKR, Zhou Z et al (2016) QTL mapping for salt tolerance at seedling stage in the interspecific cross of Gossypium tomentosum with Gossypium hirsutum. Euphytica 209:223–235

    Article  CAS  Google Scholar 

  • Patil G, Do T, Vuong TD, Valliyodan B, Lee J-D, Chaudhary J, Shannon JG, Nguyen T (2015) Genomic-assisted haplotype analysis and the development of high-throughput SNP markers for salinity tolerance in soybean. Sci Rep 6:19199

    Article  Google Scholar 

  • Pitman MG, Läuchli A (2002) Global impact of salinity and agricultural ecosystems. In: Läuchli A, Lüttge U (eds) Salinity: environment – plants – molecules. Kluwer Academic Publishers, Dordrecht, pp 3–20

    Google Scholar 

  • Pushpavalli R, Krishnamurthy L, Thudi M, Gaur PM, Rao MV, Siddique KHM et al (2015) Two key genomic regions harbour QTLs for salinity tolerance in ICCV 2 × JG 11 derived chickpea (Cicer arietinum L.) recombinant inbred lines. BMC Plant Biol 15:124. https://doi.org/10.1186/s12870-015-0491-8

    Article  PubMed  PubMed Central  Google Scholar 

  • Qi X et al (2014) Identification of a novel salt tolerance gene in wild soybean by whole-genome sequencing. Nat Commun 5:4340

    CAS  PubMed  PubMed Central  Google Scholar 

  • Quesada V, Garcı́a-Martı́nez S, Piqueras P, Ponce MR, Micol JL (2002) Genetic architecture of NaCl tolerance in Arabidopsis thaliana. Plant Physiol 130:951–963

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Rafalski A (2002) Applications of single nucleotide polymorphisms in crop genetics. Curr Opin Plant Biol 5:94–100

    Article  CAS  PubMed  Google Scholar 

  • Rana V, Ram S, Sendhil R, Nehra K, Sharma I (2015) Physiological, biochemical and morphological study in wheat (Triticum aestivum L.) RILs population for salinity tolerance. J Agric Sci 7:119–128

    Google Scholar 

  • Rao MVS, Kumar PK, Manga V, Mani NS (2007) Molecular markers for screening salinity response in Sorghum. IJBT 6:271–273

    CAS  Google Scholar 

  • Rao ES, Kadirvel P, Symonds RC, Ebert AW (2013) Relationship between survival and yield related traits in Solanum pimpinellifolium under salt stress. Euphytica 190:215–228

    Article  Google Scholar 

  • Rao ES, Kadirvel P, Symonds RC, Geethanjali S, Thontadarya RN, Ebert AW (2015) Variations in DREB1A and VP1.1 genes show association with salt tolerance traits in wild tomato (Solanum pimpinellifolium). PLoS One. https://doi.org/10.1371/journal.pone.0132535

  • Reddy INBL, Kim B-K, Yoon I-N, Kim K-H, Kwon T-R (2017) Salt tolerance in Rice: focus on mechanisms and approaches. Rice Sci 24:123–144

    Article  Google Scholar 

  • Richards RA (1993) Should selection for yield in saline regions be made on saline or non saline soils. Euphytica 32:431–438

    Article  Google Scholar 

  • Robarts DWH, Wolfe AD (2014) Sequence-related amplified polymorphism (SRAP) markers: a potential resource for studies in plant molecular biology. Appl Plant Sci 2. https://doi.org/10.3732/apps.1400017

  • Saha P, Chatterjee P, Biswas AK (2010) NaCl pretreatment alleviates salt stress by enhancement of antioxidant defense and osmolyte accumulation in mungbean (Vigna radiata L. Wilczek). Indian J Exp Biol 48:593–600

    CAS  PubMed  Google Scholar 

  • Saleh B (2016) DNA changes in cotton (Gossypium hirsutum L.) under salt stress as revealed by RAPD marker. Adv Hort Sci 30:13–21

    Google Scholar 

  • Scholberg JMS, Locascio SJ (1999) Growth response of snap bean and tomato as affected by salinity and irrigation method. Hortscience 34:259–264

    Google Scholar 

  • Sehrawat N, Bhat KV, Kaga A, Tomooka N, Yadav M, Jaiwal PK (2014) Development of new gene-specific markers associated with salt tolerance for mungbean (Vigna radiata L. Wilczek). Spanish J Agric Res 12:732–741

    Article  Google Scholar 

  • Shehata AI, Messaitfa ZH, Quraini FE, Rizwana H, Hazzani AAA, Wahabi MSE (2014) Genotypic of salt stressed sunflower (Helianthus annuus). Int J Pure App Biosci 2:40–61

    Google Scholar 

  • Shrivastava P, Kumar R (2015) Soil salinity: a serious environmental issue and plant growth promoting bacteria as one of the tools for its alleviation. Saudi J Biol Sci 22:123–131

    Article  CAS  PubMed  Google Scholar 

  • Singh DP, Singh BB (2011) Breeding for tolerance to abiotic stresses in mungbean. J Food Legumes 24:83–90

    Google Scholar 

  • Singh RK, Gregorio GB, Jain RK (2007) QTL mapping for salinity tolerance in rice. Physiol Mol Biol Plants 13:87–99

    CAS  Google Scholar 

  • Smethurst CF, Gill WM, Shabala S (2009) Using excised leaves to screen lucerne for salt tolerance: physiological and cytological evidence. Plant Signal Behav 4:39–41

    Article  CAS  PubMed  PubMed Central  Google Scholar 

  • Sónia N, Cecília MA, Ines SP et al (2013) New allelic variants found in key rice salt-tolerance genes: an association study. Plant Biotechnol J 11:87–100

    Article  Google Scholar 

  • Takehisa H, Shimodate T, Fukuta Y et al (2004) Identification of quantitative trait loci for plant growth of rice in paddy field flooded with salt water. Field Crop Res 89:85–95

    Article  Google Scholar 

  • Tal M, Shannon MC (1983) Salt tolerance in the wild relatives of the cultivated tomato: responses of Lycopersicon esculentum, L. cheesmaniae, L. peruvianum, Solanum pennellii and F1 hybrids to high salinity. Aust J Plant Physiol 10:109–117

    Article  Google Scholar 

  • Tang J, Baldwin SJ, Jacobs JME, Linden CG, Voorrips RV, Leunissen JAM et al (2008) Large-scale identification of polymorphic microsatellites using an in silico approach. BMC Bioinformatics 9:374

    Article  PubMed  PubMed Central  Google Scholar 

  • Telem RS, Wani SH, Singh NB, Sadhukhan R, Mandal N (2016) Single nucleotide polymorphism (SNP) marker for abiotic stress tolerance in crop plants. In: Al-Khayri JM et al (eds) Advances in plant breeding strategies: agronomic, abiotic and biotic stress traits. Springer, Switzerland, pp 327–343

    Chapter  Google Scholar 

  • Thomson MJ, De Ocampo M, Egdane J, Rahman MA, Sajise AG, Adorada DL et al (2010) Characterizing the Saltol quantitative trait locus for salinity tolerance in rice. Rice 3:148–160

    Article  Google Scholar 

  • Tuberosa R, Salvi S (2007) Dissecting QTLs for tolerance to drought and salinity. In: Jenks MA et al (eds) Advances in molecular breeding toward drought and salt tolerant crops, Springer, The Netherlands, pp 381–411

    Google Scholar 

  • Turki N, Shehzad T, Harrabi M, Okuno K (2015) Detection of QTLs associated with salinity tolerance in durum wheat based on association analysis. Euphytica 201:29–41

    Article  CAS  Google Scholar 

  • Vadez V, Krishnamurthy L, Thudi M, Chetukuri A, Timothy DC, Turner NC, Kadambot HMS, Pooran MG, Varshney RK (2012) Assessment of ICCV 2 × JG 62 chickpea progenies shows sensitivity of reproduction to salt stress and reveals QTL for seed yield and yield components. Mol Breed 30:9–21

    Article  Google Scholar 

  • Varshney RK, Hiremath PJ, Lekha P, Kashiwagi J, Balaji J, Deokar AA, Vadez V, Xiao Y, Srinivasan R, Gaur PM, Siddique KH, Town CD, Hoisington DA (2009) A comprehensive resource of drought- and salinity- responsive ESTs for gene discovery and marker development in chickpea (Cicer arietinum L). BMC Genomics 2009 10:523. https://doi.org/10.1186/1471-2164-10-523

  • Villalta I, Reina-Sánchez A, Boları́n MC et al (2008) Genetic analysis of Na+ and K+concentrations in leaf and stem as physiological components of salt tolerance in tomato. Theor Appl Genet 116:869–880

    Article  CAS  PubMed  Google Scholar 

  • Wang X, Zhao X, Zhu J, Wu W (2005) Genome-wide investigation of intron length polymorphisms and their potential as molecular markers in rice (Oryza sativa L.) DNA Res 12:417–427

    Article  CAS  PubMed  Google Scholar 

  • Wang X, Lu X, Wang J, Wang D, Yin Z, Fan W, Wang S, Ye W (2016) Mining and analysis of SNP in response to salinity stress in upland cotton (Gossypium hirsutum L.) PLoS One. https://doi.org/10.1371/journal.pone.0158142

  • Wang BH, Zhu P, Yuan YL, Wang CB, Yu CM, Zhang HH, Zhu XY, Wang W, Yao CB, Zhuang ZM, Li P (2014) Development of EST-SSR markers related to salt tolerance and their application in genetic diversity and evolution analysis in Gossypium. Genet Mol Res 13:3732–3746

    Google Scholar 

  • Xiang C, Du J, Zhang P, Cao G, Wang D (2015) Preliminary study on salt resistance seedling trait in maize by SRAP molecular markers. In: Zhang T-C, Nakajima M (eds) Advances in applied biotechnology, lecture notes in electrical engineering, vol 332. Springer-Verlag, Berlin, pp 11–18

    Google Scholar 

  • Yokoi S, Bressan RA, Hassegawa PM (2002) Salt Stress tolerance of Plant. JIRCAS working report pp. 25–33

    Google Scholar 

  • Yu JM, Zhang ZW, Zhu CS, Tabanao DA, Pressoir G et al (2009) Simulation appraisal of the adequacy of number of background markers for relationship estimation in association mapping. Plant Genome 2:63–77

    Article  CAS  Google Scholar 

  • Yumurtaci A, Sipahi H, Zhao L (2017) Genetic analysis of microsatellite markers for salt stress in two contrasting maize parental lines and their RIL population. Acta Bot Croat 76:55–63

    Google Scholar 

  • Zhou G, Johnson P, Ryan PR, Delhaize E, Zhou M (2012) Quantitative trait loci for salinity tolerance in barley (Hordeum vulgare L.) Mol Breed 29:427–436

    Article  Google Scholar 

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Acknowledgment

The author is thankful to Prof. Ameeta Ravikumar, HoD, Department of Biotechnology, Savitribai Phule Pune University, for her kind support during writing this book chapter.

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Authors and Affiliations

  1. Department of Biotechnology, Savitribai Phule Pune University, Pune, India

    Sagar Satish Datir

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  1. Sagar Satish Datir
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Editors and Affiliations

  1. Department of Biotechnology, Modern College of Arts, Science and Commerce, (Savitribai Phule Pune University), Pune, India

    Vinay Kumar

  2. Genetics and Plant Breeding, Mountain Research Centre for Field Crops Khudwani, Anantnag, Sher-e-Kashmir University of Agricultural Sciences and Technology of Kashmir, Jammu and Kashmir, India

    Shabir Hussain Wani

  3. Nuclear Agriculture and Biotechnology, Bhabha Atomic Research Centre, Mumbai, Maharashtra, India

    Penna Suprasanna

  4. Signaling Pathway Research Unit, RIKEN Center for Sustainable Resource Science, Yokohama, Japan

    Lam-Son Phan Tran

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Datir, S.S. (2018). Molecular Markers and Their Role in Producing Salt-Tolerant Crop Plants. In: Kumar, V., Wani, S., Suprasanna, P., Tran, LS. (eds) Salinity Responses and Tolerance in Plants, Volume 1. Springer, Cham. https://doi.org/10.1007/978-3-319-75671-4_15

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