-
1
-
-
0344530834
-
Evolution of cultivated chickpea: Four bottlenecks limit diversity and constrain adaptation
-
Abbo, S., Berger, J., and Turner, N. C. (2003). Evolution of cultivated chickpea: four bottlenecks limit diversity and constrain adaptation. Funct. Plant Biol. 30, 1081-1087. doi: 10.1071/FP03084
-
(2003)
Funct. Plant Biol
, vol.30
, pp. 1081-1087
-
-
Abbo, S.1
Berger, J.2
Turner, N.C.3
-
2
-
-
84871643573
-
Comparative analysis of kabuli chickpea transcriptome with desi wild chickpea provides a rich resource for development of functional markers
-
Agarwal, G., Jhanwar, S., Priya, P., Singh, V. K., Saxena, M. S., Parida, S. K., et al. (2012). Comparative analysis of kabuli chickpea transcriptome with desi wild chickpea provides a rich resource for development of functional markers. PLoS ONE 7:e52443. doi: 10.1371/journal.pone.0052443
-
(2012)
Plos ONE
, vol.7
-
-
Agarwal, G.1
Jhanwar, S.2
Priya, P.3
Singh, V.K.4
Saxena, M.S.5
Parida, S.K.6
-
3
-
-
84880985818
-
Identification of genes involved in the response of Arabidopsis to simultaneous biotic and abiotic stresses
-
Atkinson, N. J., Lilley, C. J., and Urwin, P. E. (2013). Identification of genes involved in the response of Arabidopsis to simultaneous biotic and abiotic stresses. Plant Physiol. 162,2028-2041.doi: 10.1104/pp. 113.222372
-
(2013)
Plant Physiol
, vol.162
, pp. 2028-2041
-
-
Atkinson, N.J.1
Lilley, C.J.2
Urwin, P.E.3
-
4
-
-
77953233453
-
Genome-wide association studyof 107 phenotypes in Arabidopsis thaliana inbred lines
-
Atwell, S., Huang, Y. S., Vilhjalmsson, B. J., Willems, G., Horton, M., Li, Y., et al. (2010). Genome-wide association studyof 107 phenotypes in Arabidopsis thaliana inbred lines. Nature 465, 627-631. doi: 10.1038/nature08800
-
(2010)
Nature
, vol.465
, pp. 627-631
-
-
Atwell, S.1
Huang, Y.S.2
Vilhjalmsson, B.J.3
Willems, G.4
Horton, M.5
Li, Y.6
-
5
-
-
84863393432
-
Coverage-based consensus calling (CbCC) of short sequence reads and comparison of CbCC results to identify SNPs in chickpea (Cicer arietinum; Fabaceae), a crop species without a reference genome
-
Azam, S., Thakur, V., Ruperao, P., Shah, T., Balaji, J., Amindala, B., et al. (2012). Coverage-based consensus calling (CbCC) of short sequence reads and comparison of CbCC results to identify SNPs in chickpea (Cicer arietinum; Fabaceae), a crop species without a reference genome. Am. J. Bot. 99, 186-192. doi: 10.3732/ajb.1100419
-
(2012)
Am. J. Bot
, vol.99
, pp. 186-192
-
-
Azam, S.1
Thakur, V.2
Ruperao, P.3
Shah, T.4
Balaji, J.5
Amindala, B.6
-
6
-
-
54449098752
-
Rapid SNP discovery and genetic mapping using sequenced RAD markers
-
Baird, N. A., Etter, P. D., Atwood, T. S., Currey, M. C., Shiver, A. L., Lewis, Z. A., et al. (2008). Rapid SNP discovery and genetic mapping using sequenced RAD markers. PLoS ONE 3:e3376. doi: 10.1371/journal.pone.0003376
-
(2008)
Plos ONE
, vol.3
-
-
Baird, N.A.1
Etter, P.D.2
Atwood, T.S.3
Currey, M.C.4
Shiver, A.L.5
Lewis, Z.A.6
-
7
-
-
79958083178
-
Identification of SNP and SSR markers in eggplant using RAD tag sequencing
-
Barchi, L., Lanteri, S., Portis, E., Acquadro, A., Vale, G., Toppino, L., et al. (2011). Identification of SNP and SSR markers in eggplant using RAD tag sequencing. BMC Genomics 12:304. doi: 10.1186/1471-2164-12-304
-
(2011)
BMC Genomics
, vol.12
, pp. 304
-
-
Barchi, L.1
Lanteri, S.2
Portis, E.3
Acquadro, A.4
Vale, G.5
Toppino, L.6
-
8
-
-
84897452326
-
Genome wide association mapping of Sclerotinia sclerotiorum resistance in soybean with a genotyping-by-sequencing approach
-
Bastien, M., Sonah, H., and Belzile, F. (2014). Genome wide association mapping of Sclerotinia sclerotiorum resistance in soybean with a genotyping-by-sequencing approach. Genome 7, 1-13. doi: 10.3835/plantgenome2013.10.0030
-
(2014)
Genome
, vol.7
, pp. 1-13
-
-
Bastien, M.1
Sonah, H.2
Belzile, F.3
-
9
-
-
84876367781
-
Marker density and read depth for genotyping populations using genotyping-by-sequencing
-
Beissinger, T. M., Hirsch, C. N., Sekhon, R. S., Foerster, J. M., Johnson, J. M., Muttoni, G., et al. (2013). Marker density and read depth for genotyping populations using genotyping-by-sequencing. Genetics 193, 1073-1081. doi: 10.1534/genetics.112.147710
-
(2013)
Genetics
, vol.193
, pp. 1073-1081
-
-
Beissinger, T.M.1
Hirsch, C.N.2
Sekhon, R.S.3
Foerster, J.M.4
Johnson, J.M.5
Muttoni, G.6
-
10
-
-
28444492322
-
Evolution in the genus Cicer vernalisation response and low temperature pod set in chickpea (C. arietinum L.) and its annual wild relatives. Aust
-
Berger, J. D., Buck, R., Henzell, J. M., and Turner, N. C. (2005). Evolution in the genus Cicer vernalisation response and low temperature pod set in chickpea (C. arietinum L.) and its annual wild relatives. Aust. J. Agric. Res. 56, 1191-1200. doi: 10.1071/AR05089
-
(2005)
J. Agric. Res
, vol.56
, pp. 1191-1200
-
-
Berger, J.D.1
Buck, R.2
Henzell, J.M.3
Turner, N.C.4
-
11
-
-
35748946021
-
TASSEL: Software for association mapping of complex traits in diverse samples
-
Bradbury, P. J., Zhang, Z., Kroon, D. E., Casstevens, T. M., Ramdoss, Y., and Buckler, E. S. (2007). TASSEL: software for association mapping of complex traits in diverse samples. Bioinformatics 23, 2633-2635. doi: 10.1093/bioinformat-ics/btm308
-
(2007)
Bioinformatics
, vol.23
, pp. 2633-2635
-
-
Bradbury, P.J.1
Zhang, Z.2
Kroon, D.E.3
Casstevens, T.M.4
Ramdoss, Y.5
Buckler, E.S.6
-
12
-
-
80054797858
-
Whole-genome nucleotide diversity, recombination, and linkage disequilibrium in the model legume Medicago truncatula
-
Branca, A., Paape, T. D., Zhou, P., Briskine, R., Farmer, A. D., Mudge, J., et al. (2011). Whole-genome nucleotide diversity, recombination, and linkage disequilibrium in the model legume Medicago truncatula. Proc. Natl. Acad. Sci. U.S.A. 108, E864-E870. doi: 10.1073/pnas.1104032108
-
(2011)
Proc. Natl. Acad. Sci. U.S.A
, vol.108
, pp. E864-E870
-
-
Branca, A.1
Paape, T.D.2
Zhou, P.3
Briskine, R.4
Farmer, A.D.5
Mudge, J.6
-
13
-
-
0032997217
-
The essence ofSNPs
-
Brookes, A. J. (1999). The essence ofSNPs. Gene 234, 177-186. doi: 10.1016/S0378-1119(99)00219-X
-
(1999)
Gene
, vol.234
, pp. 177-186
-
-
Brookes, A.J.1
-
14
-
-
38849163444
-
Molecular insights into the evolution ofcrop plants
-
Burger, J. C., Champan, M. A., and Burke, J. M. (2008). Molecular insights into the evolution ofcrop plants. Am. J.Bot. 95, 113-122. doi: 10.3732/ajb.95.2.113
-
(2008)
Am. J.Bot
, vol.95
, pp. 113-122
-
-
Burger, J.C.1
Champan, M.A.2
Burke, J.M.3
-
15
-
-
33846059429
-
The role of methionine recycling for ethylene synthesis in Arabidopsis
-
Burstenbinder, K., Rzewuski, G., Wirtz, M., Hell, R., and Sauter, M. (2007). The role of methionine recycling for ethylene synthesis in Arabidopsis. Plant J. 49, 238-249. doi: 10.1111/j.1365-313X.2006.02942.x
-
(2007)
Plant J
, vol.49
, pp. 238-249
-
-
Burstenbinder, K.1
Rzewuski, G.2
Wirtz, M.3
Hell, R.4
Sauter, M.5
-
16
-
-
84874632677
-
Genome wide allele frequency fingerprints (GWAFFs) of populations via genotyping by sequencing
-
Byrne, S., Czaban, A., Studer, B., Panitz, F., Bendixen, C., and Asp, T. (2013). Genome wide allele frequency fingerprints (GWAFFs) of populations via genotyping by sequencing. PLoS ONE 8:e57438. doi: 10.1371/journal.pone.0057438
-
(2013)
Plos ONE
, vol.8
-
-
Byrne, S.1
Czaban, A.2
Studer, B.3
Panitz, F.4
Bendixen, C.5
Asp, T.6
-
17
-
-
84878461613
-
Stacks: An analysis tool set for population genomics
-
Catchen, J., Hohenlohe, P. A., Bassham, S., Amores, A., and Cresko, W. A. (2013). Stacks: an analysis tool set for population genomics. Mol. Ecol. 22, 3124-3140. doi: 10.1111/mec.12354
-
(2013)
Mol. Ecol
, vol.22
, pp. 3124-3140
-
-
Catchen, J.1
Hohenlohe, P.A.2
Bassham, S.3
Amores, A.4
Cresko, W.A.5
-
18
-
-
0032829883
-
Genome-wide mapping with biallelic markers in Arabidopsis thaliana. Nat
-
Cho, R. J., Mindrinos, M., Richards, D. R., Sapolsky, R J.,Anderson, M., Drenkard, E., et al. (1999). Genome-wide mapping with biallelic markers in Arabidopsis thaliana. Nat. Genet. 23, 203-207.
-
(1999)
Genet
, vol.23
, pp. 203-207
-
-
Cho, R.J.1
Mindrinos, M.2
Richards, D.R.3
Sapolsky, R.J.4
Anderson, M.5
Drenkard, E.6
-
19
-
-
78650792488
-
Construction and application for QTL analysis of a restriction site associated DNA (RAD) linkage map in barley
-
Chutimanitsakun, Y., Nipper, R. W., Cuesta-Marcos, A., Cistue, L., Corey, A., Fil-ichkina, T., et al. (2011). Construction and application for QTL analysis of a restriction site associated DNA (RAD) linkage map in barley. BMC Genomics 12:4. doi: 10.1186/1471-2164-12-4
-
(2011)
BMC Genomics
, vol.12
, pp. 4
-
-
Chutimanitsakun, Y.1
Nipper, R.W.2
Cuesta-Marcos, A.3
Cistue, L.4
Corey, A.5
Fil-Ichkina, T.6
-
20
-
-
53249132629
-
Identification of genetic variants using bar-coded multiplexed sequencing. Nat
-
Craig, D. W., Pearson, J. V., Szelinger, S., Sekar, A., Redman, M., Corneveaux, J. J., et al. (2008). Identification of genetic variants using bar-coded multiplexed sequencing. Nat. Methods 5, 887-893. doi: 10.1038/nmeth.1251
-
(2008)
Methods
, vol.5
, pp. 887-893
-
-
Craig, D.W.1
Pearson, J.V.2
Szelinger, S.3
Sekar, A.4
Redman, M.5
Corneveaux, J.J.6
-
21
-
-
56149096455
-
Multiplex sequencing of plant chloroplast genomes using Solexa sequencing-by-synthesis technology
-
Cronn, R., Liston, A., Parks, M., Gernandt, D. S., Shen, R., and Mockler, T. (2008). Multiplex sequencing of plant chloroplast genomes using Solexa sequencing-by-synthesis technology. Nucleic Acids Res. 36:e122. doi: 10.1093/nar/ gkn502
-
(2008)
Nucleic Acids Res
, vol.36
-
-
Cronn, R.1
Liston, A.2
Parks, M.3
Gernandt, D.S.4
Shen, R.5
Mockler, T.6
-
22
-
-
84889073191
-
Genomic prediction in maize breeding populations with genotyping-by-sequencing
-
Crossa, J., Beyene, Y., Kassa, S., Perez, P., Hickey, J. M., Chen, C., et al. (2013). Genomic prediction in maize breeding populations with genotyping-by-sequencing. G3 (Bethesda). 3, 1903-1926. doi: 10.1534/g3.113. 008227
-
(2013)
G3 (Bethesda)
, vol.3
, pp. 1903-1926
-
-
Crossa, J.1
Beyene, Y.2
Kassa, S.3
Perez, P.4
Hickey, J.M.5
Chen, C.6
-
23
-
-
79959435199
-
Genome-wide genetic marker discovery and genotyp-ing using next-generation sequencing
-
Davey, J. W., Hohenlohe, P. A., Etter, P. D., Boone, J. Q., Catchen, J. M., and Blaxter, M. L. (2011). Genome-wide genetic marker discovery and genotyp-ing using next-generation sequencing. Nat. Rev. Genet. 12, 499-510. doi: 10.1038/nrg3012
-
(2011)
Nat. Rev. Genet
, vol.12
, pp. 499-510
-
-
Davey, J.W.1
Hohenlohe, P.A.2
Etter, P.D.3
Boone, J.Q.4
Catchen, J.M.5
Blaxter, M.L.6
-
24
-
-
84907043505
-
Genome wide SNP identification in chickpea for use in development of a high density genetic map and improvement of chickpea reference genome assembly
-
Deokar, A. A., Ramsay, L., Sharpe, A. G., Diapari, M., Sindhu, A., Bett, K., et al. (2014). Genome wide SNP identification in chickpea for use in development of a high density genetic map and improvement of chickpea reference genome assembly. BMC Genomics 15:708. doi: 10.1186/1471-2164-15-708
-
(2014)
BMC Genomics
, vol.15
, pp. 708
-
-
Deokar, A.A.1
Ramsay, L.2
Sharpe, A.G.3
Diapari, M.4
Sindhu, A.5
Bett, K.6
-
25
-
-
84910642171
-
Polymorphism identification and improved genome annotation of Brassica rapa through deep RNA sequencing
-
Devisetty, U. K., Covington, M. F., Tat, A. V., Lekkala, S., and Maloof, J. N. (2014). Polymorphism identification and improved genome annotation of Brassica rapa through deep RNA sequencing. G3 (Bethesda). 4, 2065-2078. doi: 10.1534/g3.114.012526
-
(2014)
G3 (Bethesda)
, vol.4
, pp. 2065-2078
-
-
Devisetty, U.K.1
Covington, M.F.2
Tat, A.V.3
Lekkala, S.4
Maloof, J.N.5
-
26
-
-
79955783956
-
A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species
-
Elshire, R. J., Glaubitz, J. C., Sun, Q., Poland, J. A., Kawamoto, K., Buckler, E. S., et al. (2011). A robust, simple genotyping-by-sequencing (GBS) approach for high diversity species. PLoS ONE 6:e19379. doi: 10.1371/journal.pone.0019379
-
(2011)
Plos ONE
, vol.6
-
-
Elshire, R.J.1
Glaubitz, J.C.2
Sun, Q.3
Poland, J.A.4
Kawamoto, K.5
Buckler, E.S.6
-
27
-
-
21244479740
-
Detecting the number of clusters of individuals using the software STRUCTURE: A simulation study
-
Evanno, G., Regnaut, S., and Goudet, J. (2005). Detecting the number of clusters of individuals using the software STRUCTURE: a simulation study. Mol. Ecol. 14, 2611-2620. doi: 10.1111/j.1365-294X.2005.02553.x
-
(2005)
Mol. Ecol
, vol.14
, pp. 2611-2620
-
-
Evanno, G.1
Regnaut, S.2
Goudet, J.3
-
28
-
-
0031978181
-
Base-calling of automated sequencer traces using phred. II. Error probabilities
-
Ewing, B., and Green, P. (1998). Base-calling of automated sequencer traces using phred. II. Error probabilities. GenomeRes. 8, 186-194. doi: 10.1101/gr.8.3.175
-
(1998)
Genomeres
, vol.8
, pp. 186-194
-
-
Ewing, B.1
Green, P.2
-
29
-
-
79961197602
-
Gene discovery and tissue-specific transcriptome analysis in chickpea with massively parallel pyrosequencing and web resource development
-
Garg, R., Patel, R. K., Jhanwar, S., Priya, P., Bhattacharjee, A., Yadav, G., et al. (2011). Gene discovery and tissue-specific transcriptome analysis in chickpea with massively parallel pyrosequencing and web resource development. Plant Physiol. 156, 1661-1678. doi: 10.1104/pp.111.178616
-
(2011)
Plant Physiol
, vol.156
, pp. 1661-1678
-
-
Garg, R.1
Patel, R.K.2
Jhanwar, S.3
Priya, P.4
Bhattacharjee, A.5
Yadav, G.6
-
30
-
-
84867714759
-
High-throughput SNP discovery and genotyping for constructing a saturated linkage map of chickpea (Cicer arietinum L.)
-
Gaur, R., Azam, S., Jeena, G., Khan, A. W., Choudhary, S., Jain, M., et al. (2012). High-throughput SNP discovery and genotyping for constructing a saturated linkage map of chickpea (Cicer arietinum L.). DNA Res. 19, 357-373. doi: 10.1093/dnares/dss018
-
(2012)
DNA Res
, vol.19
, pp. 357-373
-
-
Gaur, R.1
Azam, S.2
Jeena, G.3
Khan, A.W.4
Choudhary, S.5
Jain, M.6
-
31
-
-
79959287492
-
Development and use of genic molecular markers (GMMs) for construction of a transcript map of chickpea (Cicer arietinum L.)
-
Gujaria, N., Kumar, A., Dauthal, P., Dubey, A., Hiremath, P., Bhanu Prakash, A., et al. (2011). Development and use of genic molecular markers (GMMs) for construction of a transcript map of chickpea (Cicer arietinum L.). Theor. Appl. Genet. 122, 1577-1589. doi: 10.1007/s00122-011-1556-1
-
(2011)
Theor. Appl. Genet
, vol.122
, pp. 1577-1589
-
-
Gujaria, N.1
Kumar, A.2
Dauthal, P.3
Dubey, A.4
Hiremath, P.5
Bhanu Prakash, A.6
-
32
-
-
0012339256
-
Single nucleotide polymorphisms: A new paradigm for molecular marker technology and DNA polymorphism detection with emphasis on their use in plants
-
Gupta, P. K., Roy, J. K., and Prasad, M. (2001). Single nucleotide polymorphisms: a new paradigm for molecular marker technology and DNA polymorphism detection with emphasis on their use in plants. Curr. Sci. 80, 524-535.
-
(2001)
Curr. Sci
, vol.80
, pp. 524-535
-
-
Gupta, P.K.1
Roy, J.K.2
Prasad, M.3
-
33
-
-
16344396626
-
Molecular markers from the transcribed/expressed region of the genome in higher plants
-
Gupta, P. K., and Rustgi, S. (2004). Molecular markers from the transcribed/expressed region of the genome in higher plants. Funct. Integr. Genomics 4, 139-162. doi: 10.1007/s10142-004-0107-0
-
(2004)
Funct. Integr. Genomics
, vol.4
, pp. 139-162
-
-
Gupta, P.K.1
Rustgi, S.2
-
34
-
-
84907485370
-
Genotyping-by-sequencing (GBS), an ultimate marker assisted selection (MAS) tool to accelerate plant breeding
-
He, J., Zhao, X., Laroche, A., Lu, Z. X., Liu, H., and Li, Z. (2014). Genotyping-by-sequencing (GBS), an ultimate marker assisted selection (MAS) tool to accelerate plant breeding. Front. PlantSci. 5:484. doi: 10.3389/fpls.2014.00484
-
(2014)
Front. Plantsci
, vol.5
, pp. 484
-
-
He, J.1
Zhao, X.2
Laroche, A.3
Lu, Z.X.4
Liu, H.5
Li, Z.6
-
35
-
-
80052500402
-
Large-scale transcriptome analysis in chickpea (Cicer arietinum L.), an orphan legume crop of the semi-arid tropics of Asia and Africa
-
Hiremath, P. J., Farmer, A., Cannon, S. B., Woodward, J., Kudapa, H., Tuteja, R., et al. (2011). Large-scale transcriptome analysis in chickpea (Cicer arietinum L.), an orphan legume crop of the semi-arid tropics of Asia and Africa. Plant Biotechnol. J. 9, 922-931. doi: 10.1111/j.1467-7652.2011.00625.x
-
(2011)
Plant Biotechnol. J
, vol.9
, pp. 922-931
-
-
Hiremath, P.J.1
Farmer, A.2
Cannon, S.B.3
Woodward, J.4
Kudapa, H.5
Tuteja, R.6
-
36
-
-
84863564349
-
Large-scale development of cost-effective SNP marker assays for diversity assessment and genetic mapping in chickpea and comparative mapping in legumes
-
Hiremath, P. J., Kumar, A., Penmetsa, R. V., Farmer, A., Schlueter, J. A., Chamarthi, S. K., et al. (2012). Large-scale development of cost-effective SNP marker assays for diversity assessment and genetic mapping in chickpea and comparative mapping in legumes. Plant Biotechnol. J. 10, 716-732. doi: 10.1111/j. 1467-7652.2012.00710.x
-
(2012)
Plant Biotechnol. J
, vol.10
, pp. 716-732
-
-
Hiremath, P.J.1
Kumar, A.2
Penmetsa, R.V.3
Farmer, A.4
Schlueter, J.A.5
Chamarthi, S.K.6
-
37
-
-
77649219524
-
Population genomics of parallel adaptation in three-spine stickleback using sequenced RAD tags
-
Hohenlohe, P. A., Bassham, S., Etter, P. D., Stiffler, N., Johnson, E. A., and Cresko, W. A. (2010). Population genomics of parallel adaptation in three-spine stickleback using sequenced RAD tags. PLoS Genet. 6:e1000862. doi: 10.1371/journal.pgen.1000862
-
(2010)
Plos Genet
, vol.6
-
-
Hohenlohe, P.A.1
Bassham, S.2
Etter, P.D.3
Stiffler, N.4
Johnson, E.A.5
Cresko, W.A.6
-
38
-
-
84901350188
-
Efficient imputation of missing markers in low-coverage genotyping-by-sequencing data from multi-parental crosses
-
Huang, B. E., Raghavan, C., Mauleon, R., Broman, K. W., and Leung, (2014). Efficient imputation of missing markers in low-coverage genotyping-by-sequencing data from multi-parental crosses. Genetics 197, 401-404. doi: 10.1534/genetics.113.158014
-
(2014)
Genetics
, vol.197
, pp. 401-404
-
-
Huang, B.E.1
Raghavan, C.2
Mauleon, R.3
Broman, K.W.4
-
39
-
-
66449120272
-
High-throughput genotyping bywhole genome resequencing
-
Huang, X., Feng, Q., Qian, Q., Zhao, Q., Wang, L., Wang, A., et al. (2009). High-throughput genotyping bywhole genome resequencing. Genome Res. 19, 1068-1076. doi: 10.1101/gr.089516.108
-
(2009)
Genome Res
, vol.19
, pp. 1068-1076
-
-
Huang, X.1
Feng, Q.2
Qian, Q.3
Zhao, Q.4
Wang, L.5
Wang, A.6
-
40
-
-
78049332150
-
Genome-wide association studies of14 agronomic traits in rice landraces
-
Huang, X., Wei, X., Sang, T., Zhao, Q., Feng, Q., Zhao, Y., et al. (2010). Genome-wide association studies of14 agronomic traits in rice landraces. Nat. Genet. 42, 961-967. doi: 10.1038/ng.695
-
(2010)
Nat. Genet
, vol.42
, pp. 961-967
-
-
Huang, X.1
Wei, X.2
Sang, T.3
Zhao, Q.4
Feng, Q.5
Zhao, Y.6
-
41
-
-
84925483131
-
Genotyping-by-sequencing based intra-specific genetic map refines a “QTL-hotspot” region for drought tolerance in chickpea
-
[Epub ahead of print]
-
Jaganathan, D., Thudi, M., Kale, S., Azam, S., Roorkiwal, M., Gaur, P. M., et al. (2014). Genotyping-by-sequencing based intra-specific genetic map refines a “QTL-hotspot” region for drought tolerance in chickpea. Mol Genet. Genomics. doi: 10.1007/s00438-014-0932-3. [Epub ahead of print].
-
(2014)
Mol Genet. Genomics
-
-
Jaganathan, D.1
Thudi, M.2
Kale, S.3
Azam, S.4
Roorkiwal, M.5
Gaur, P.M.6
-
42
-
-
84878341271
-
A draft genome sequence of the pulse crop chickpea (Cicer arietinum L.)
-
Jain, M., Misra, G., Patel, R. K., Priya, P., Jhanwar, S., Khan, A. W., et al. (2013). A draft genome sequence of the pulse crop chickpea (Cicer arietinum L.). Plant J. 74,715-729. doi: 10.1111/tpj.12173
-
(2013)
Plant J
, vol.74
, pp. 715-729
-
-
Jain, M.1
Misra, G.2
Patel, R.K.3
Priya, P.4
Jhanwar, S.5
Khan, A.W.6
-
43
-
-
84892856134
-
Genome-wide discovery of DNA polymorphisms in rice cultivars with contrasting drought and salinity stress response and their functional relevance
-
Jain, M., Moharana, K. C., Shankar, R., Kumari, R., and 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. doi: 10.1111/pbi.12133
-
(2014)
Plant Biotechnol.J
, vol.12
, pp. 253-264
-
-
Jain, M.1
Moharana, K.C.2
Shankar, R.3
Kumari, R.4
Garg, R.5
-
44
-
-
84907414054
-
Genotyping by sequencing for genomic prediction in a soybean breeding population
-
Jarquin, D., Kocak, K., Posadas, L., Hyma, K., Jedlicka, J., Graef, G., et al. (2014). Genotyping by sequencing for genomic prediction in a soybean breeding population. BMC Genomics 15:740. doi: 10.1186/1471-2164-15-740
-
(2014)
BMC Genomics
, vol.15
, pp. 740
-
-
Jarquin, D.1
Kocak, K.2
Posadas, L.3
Hyma, K.4
Jedlicka, J.5
Graef, G.6
-
45
-
-
84863567245
-
Transcriptome sequencing of wild chickpea as a rich resource for marker development
-
Jhanwar, S., Priya, P., Garg, R., Parida, S. K., Tyagi, A. K., and Jain, M. (2012). Transcriptome sequencing of wild chickpea as a rich resource for marker development. Plant Biotechnol. J. 10, 690-702. doi: 10.1111/j. 1467-7652.2012. 00712.x
-
(2012)
Plant Biotechnol. J
, vol.10
, pp. 690-702
-
-
Jhanwar, S.1
Priya, P.2
Garg, R.3
Parida, S.K.4
Tyagi, A.K.5
Jain, M.6
-
46
-
-
69649109364
-
Circos: An information aesthetic for comparative genomics
-
Krzywinski, M., Schein, J. E., Birol, I., Connors, J., Gascoyne, R., Horsman, D., et al. (2009). Circos: an information aesthetic for comparative genomics. Genome Res. 19, 1639-1645. doi: 10.1101/gr.092759.109
-
(2009)
Genome Res
, vol.19
, pp. 1639-1645
-
-
Krzywinski, M.1
Schein, J.E.2
Birol, I.3
Connors, J.4
Gascoyne, R.5
Horsman, D.6
-
47
-
-
84884190218
-
Functionally relevant microsatellite markers from chickpea transcription factor genes for efficient genotyping applications and trait association mapping
-
Kujur, A., Bajaj, D., Saxena, M. S., Tripathi, S., Upadhyaya, H. D., Gowda, C. L. L., et al. (2013). Functionally relevant microsatellite markers from chickpea transcription factor genes for efficient genotyping applications and trait association mapping. DNA Res. 20, 355-374. doi: 10.1093/dnares/dst015
-
(2013)
DNA Res
, vol.20
, pp. 355-374
-
-
Kujur, A.1
Bajaj, D.2
Saxena, M.S.3
Tripathi, S.4
Upadhyaya, H.D.5
Gowda, C.6
-
48
-
-
84901348264
-
An efficient and cost-effective approach for genic microsatellite marker-based large-scale trait association mapping: Identification of candidate genes for seed weight in chickpea
-
Kujur, A., Bajaj, D., Saxena, M. S., Tripathi, S., Upadhyaya, H. D., Gowda, C. L. L., et al. (2014). An efficient and cost-effective approach for genic microsatellite marker-based large-scale trait association mapping: identification of candidate genes for seed weight in chickpea. Mol. Breed. 34, 241-265. doi: 10.1007/s11032-014-0033-3
-
(2014)
Mol. Breed
, vol.34
, pp. 241-265
-
-
Kujur, A.1
Bajaj, D.2
Saxena, M.S.3
Tripathi, S.4
Upadhyaya, H.D.5
Gowda, C.6
-
49
-
-
79957887475
-
Towards marker-assisted selection in pulses: A review
-
Kumar, J., Choudhary, A. K., Solanki, R. K., and Pratap, A. (2011). Towards marker-assisted selection in pulses: a review. Plant Breed. 130, 297-313. doi: 10.1111/j.1439-0523.2011.01851.x
-
(2011)
Plant Breed
, vol.130
, pp. 297-313
-
-
Kumar, J.1
Choudhary, A.K.2
Solanki, R.K.3
Pratap, A.4
-
50
-
-
78649479141
-
Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection
-
Lam, H. M., Xu, X., Liu, X., Chen, W., Yang, G., Wong, F. L., et al. (2010). Resequencing of 31 wild and cultivated soybean genomes identifies patterns of genetic diversity and selection. Nat. Genet. 42, 1053-1059. doi: 10.1038/ng.715
-
(2010)
Nat. Genet
, vol.42
, pp. 1053-1059
-
-
Lam, H.M.1
Xu, X.2
Liu, X.3
Chen, W.4
Yang, G.5
Wong, F.L.6
-
51
-
-
84859210032
-
Fast gapped-read alignment with Bowtie 2
-
Langmead, B., and Salzberg, S. L. (2012). Fast gapped-read alignment with Bowtie 2. Nat. Methods 9, 357-359. doi: 10.1038/nmeth.1923
-
(2012)
Nat. Methods
, vol.9
, pp. 357-359
-
-
Langmead, B.1
Salzberg, S.L.2
-
52
-
-
78650979491
-
High levels of nucleotide diversity and fast decline of linkage disequilibrium in rye (Secale cereale L.) genes involved in frost response
-
Li, Y., Haseneyer, G., Schon, C. C., Ankerst, D., Korzun, V., Wilde, P., et al. (2011). High levels of nucleotide diversity and fast decline of linkage disequilibrium in rye (Secale cereale L.) genes involved in frost response. BMC Plant Biol. 11:6. doi: 10.1186/1471-2229-11-6
-
(2011)
BMC Plant Biol
, vol.11
, pp. 6
-
-
Li, Y.1
Haseneyer, G.2
Schon, C.C.3
Ankerst, D.4
Korzun, V.5
Wilde, P.6
-
53
-
-
84893160089
-
An evaluation of genotyping by sequencing (GBS) to map the Breviaristatum-e (ari-e) locus in cultivated barley
-
Liu, H., Bayer, M., Druka, A., Russell, J. R., Hackett, C. A., Poland, J., et al. (2014). An evaluation of genotyping by sequencing (GBS) to map the Breviaristatum-e (ari-e) locus in cultivated barley. BMC Genomics 15:104. doi: 10.1186/14712164-15-104
-
(2014)
BMC Genomics
, vol.15
, pp. 104
-
-
Liu, H.1
Bayer, M.2
Druka, A.3
Russell, J.R.4
Hackett, C.A.5
Poland, J.6
-
54
-
-
18744382780
-
PowerMarker: An integrated analysis environment for genetic marker analysis
-
Liu, K., and Muse, S. V. (2005). PowerMarker: an integrated analysis environment for genetic marker analysis. Bioinformatics 21, 2128-2129. doi: 10.1093/bioin-formatics/bti282
-
(2005)
Bioinformatics
, vol.21
, pp. 2128-2129
-
-
Liu, K.1
Muse, S.V.2
-
55
-
-
24044440971
-
BiNGO: A cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks
-
Maere, S., Heymans, K., and Kuiper, M. (2005). BiNGO: a cytoscape plugin to assess overrepresentation of gene ontology categories in biological networks. Bioinformatics 21, 3448-3449. doi: 10.1093/bioinformatics/bti551
-
(2005)
Bioinformatics
, vol.21
, pp. 3448-3449
-
-
Maere, S.1
Heymans, K.2
Kuiper, M.3
-
56
-
-
84885672827
-
Barleywhole exome capture: A tool for genomic research in the genus Hordeum and beyond
-
Mascher, M., Richmond, T. A., Gerhardt, D. J., Himmelbach, A., Clissold, L., Sam-path, D., et al. (2013). Barleywhole exome capture: a tool for genomic research in the genus Hordeum and beyond. Plant J. 76, 494-505. doi: 10.1111/tpj.12294
-
(2013)
Plant J
, vol.76
, pp. 494-505
-
-
Mascher, M.1
Richmond, T.A.2
Gerhardt, D.J.3
Himmelbach, A.4
Clissold, L.5
Sam-Path, D.6
-
57
-
-
37249054460
-
The extent of linkage disequilibrium in rice (Oryza sativa L.)
-
Mather, K. A., Caicedo, A. L., Polato, N. R., Olsen, K. M., McCouch, S., and Purug-ganan, M. D. (2007). The extent of linkage disequilibrium in rice (Oryza sativa L.). Genetics 177, 2223-2232. doi: 10.1534/genetics.107.079616
-
(2007)
Genetics
, vol.177
, pp. 2223-2232
-
-
Mather, K.A.1
Caicedo, A.L.2
Polato, N.R.3
Olsen, K.M.4
McCouch, S.5
Purug-Ganan, M.D.6
-
58
-
-
84870265846
-
A physical, genetic and functional sequence assembly of the barley genome
-
Mayer, K. F., Waugh, R., Brown, J. W., Schulman, A., Langridge, P., Platzer, M., et al. (2012). A physical, genetic and functional sequence assembly of the barley genome. Nature 491, 711-716. doi: 10.1038/nature11543
-
(2012)
Nature
, vol.491
, pp. 711-716
-
-
Mayer, K.F.1
Waugh, R.2
Brown, J.W.3
Schulman, A.4
Langridge, P.5
Platzer, M.6
-
59
-
-
33846874137
-
Rapid and cost-effective polymorphism identification and genotyping using restriction site associated DNA (RAD) markers
-
Miller, M. R., Dunham, J. P., Amores, A., Cresko, W. A., and Johnson, E. A. (2007). Rapid and cost-effective polymorphism identification and genotyping using restriction site associated DNA (RAD) markers. Genome Res. 17, 240-248. doi: 10.1101/gr.5681207
-
(2007)
Genome Res
, vol.17
, pp. 240-248
-
-
Miller, M.R.1
Dunham, J.P.2
Amores, A.3
Cresko, W.A.4
Johnson, E.A.5
-
60
-
-
84886326818
-
Future prospects of molecular markers in plants
-
ed R. J. Henry (Oxford, UK: Wiley-Blackwell Publishing Ltd)
-
Mir, R. R., and Varshney, R. K. (2012). “Future prospects of molecular markers in plants” in Molecular Markers in Plants, ed R. J. Henry (Oxford, UK: Wiley-Blackwell Publishing Ltd), 169-190.
-
(2012)
Molecular Markers in Plants
, pp. 169-190
-
-
Mir, R.R.1
Varshney, R.K.2
-
61
-
-
84872197099
-
Population genomic and genome-wide association studies of agroclimatic traits in sorghum
-
Morris, G. P., Ramu, P., Deshpande, S. P., Hash, C. T., Shah, T., Upadhyaya, H., et al. (2013). Population genomic and genome-wide association studies of agroclimatic traits in sorghum. Proc. Natl. Acad. Sci. U.S.A. 110, 453-458. doi: 10.1073/pnas.1215985110
-
(2013)
Proc. Natl. Acad. Sci. U.S.A
, vol.110
, pp. 453-458
-
-
Morris, G.P.1
Ramu, P.2
Deshpande, S.P.3
Hash, C.T.4
Shah, T.5
Upadhyaya, H.6
-
62
-
-
77953129466
-
Integration of novel SSR and gene-based SNP marker loci in the chickpea genetic map and establishment of newanchor points with Medicago truncatula genome
-
Nayak, S. N., Zhu, H., Varghese, N., Datta, S., Choi, H. K., Horres, R., et al. (2010). Integration of novel SSR and gene-based SNP marker loci in the chickpea genetic map and establishment of newanchor points with Medicago truncatula genome. Theor.Appl. Genet. 120, 1415-1441. doi: 10.1007/s00122-010-1265-1
-
(2010)
Theor.Appl. Genet
, vol.120
, pp. 1415-1441
-
-
Nayak, S.N.1
Zhu, H.2
Varghese, N.3
Datta, S.4
Choi, H.K.5
Horres, R.6
-
63
-
-
0020965531
-
Accuracy of estimated phylogenetic trees from molecular data. II. Gene frequency data
-
Nei, M., Tajima, F., and Tateno, Y. (1983). Accuracy of estimated phylogenetic trees from molecular data. II. Gene frequency data. J. Mol. Evol. 19, 153-170. doi: 10.1007/BF02300753
-
(1983)
J. Mol. Evol
, vol.19
, pp. 153-170
-
-
Nei, M.1
Tajima, F.2
Tateno, Y.3
-
64
-
-
84865299428
-
SNPs in stress-responsive rice genes: Validation, genotyping, functional relevance and population structure
-
Parida, S. K., Mukerji, M., Singh, A. K., Singh, N. K., and Mohapatra, T. (2012). SNPs in stress-responsive rice genes: validation, genotyping, functional relevance and population structure. BMC Genomics 13:426. doi: 10.1186/14712164-13-426
-
(2012)
BMC Genomics
, vol.13
, pp. 426
-
-
Parida, S.K.1
Mukerji, M.2
Singh, A.K.3
Singh, N.K.4
Mohapatra, T.5
-
65
-
-
79959297013
-
Mapping with RAD (Restriction-site associated DNA) markers to rapidly identify QTL for stemrustresistance in Loliumperenne
-
Pfender, W. F., Saha, M. C., Johnson, E. A., and Slabaugh, M. B. (2011). Mapping with RAD (restriction-site associated DNA) markers to rapidly identify QTL for stemrustresistance in Loliumperenne. Theor.Appl. Genet. 122, 1467-1480. doi: 10.1007/s00122-011-1546-3
-
(2011)
Theor.Appl. Genet
, vol.122
, pp. 1467-1480
-
-
Pfender, W.F.1
Saha, M.C.2
Johnson, E.A.3
Slabaugh, M.B.4
-
66
-
-
84857520461
-
Development of high-density genetic maps for barley and wheat using a novel two-enzyme genotyping-by-sequencing approach
-
Poland, J. A., Brown, P. J., Sorrells, M. E., and Jannink, J. L. (2012a). Development of high-density genetic maps for barley and wheat using a novel two-enzyme genotyping-by-sequencing approach. PLoS ONE 7:e32253. doi: 10.1371/journal.pone.0032253
-
(2012)
Plos ONE
, vol.7
-
-
Poland, J.A.1
Brown, P.J.2
Sorrells, M.E.3
Jannink, J.L.4
-
67
-
-
84875444971
-
Genotyping-by-sequencing for plant breeding and genetics
-
Poland, J. A., and Rife, T. W. (2012). Genotyping-by-sequencing for plant breeding and genetics. Plant Genome 5, 92-102. doi: 10.3835/plantgenome2012. 05.0005
-
(2012)
Plant Genome
, vol.5
, pp. 92-102
-
-
Poland, J.A.1
Rife, T.W.2
-
68
-
-
84878537188
-
Genomic selection in wheat breeding using genotyping-by-sequencing
-
Poland, J., Endelman, J., Dawson, J., Rutkoski, J., Wu, S., Manes, Y., et al. (2012b). Genomic selection in wheat breeding using genotyping-by-sequencing. Plant Genome 5, 103-113. doi: 10.3835/plantgenome2012.06.0006
-
(2012)
Plant Genome
, vol.5
, pp. 103-113
-
-
Poland, J.1
Endelman, J.2
Dawson, J.3
Rutkoski, J.4
Wu, S.5
Manes, Y.6
-
69
-
-
0034118493
-
Inference of population structure using multilocus genotype data
-
Pritchard, J. K., Stephens, M., and Donnelly, P. (2000). Inference of population structure using multilocus genotype data. Genetics 155, 945-959.
-
(2000)
Genetics
, vol.155
, pp. 945-959
-
-
Pritchard, J.K.1
Stephens, M.2
Donnelly, P.3
-
70
-
-
34548292504
-
PLINK: A tool set for whole-genome association and population-based linkage analyses
-
Purcell, S., Neale, B., Todd-Brown, K., Thomas, L., Ferreira, M. A., Bender, D., et al. (2007). PLINK: a tool set for whole-genome association and population-based linkage analyses. Am. J. Hum. Genet. 81, 559-575. doi: 10.1086/519795
-
(2007)
Am. J. Hum. Genet
, vol.81
, pp. 559-575
-
-
Purcell, S.1
Neale, B.2
Todd-Brown, K.3
Thomas, L.4
Ferreira, M.A.5
Bender, D.6
-
71
-
-
0036008761
-
Applications of single nucleotide polymorphisms in crop genetics
-
Rafalski, A. (2002). Applications of single nucleotide polymorphisms in crop genetics. Curr. Opin. Plant Biol. 5, 94-100. doi: 10.1016/S1369-5266(02) 00240-6
-
(2002)
Curr. Opin. Plant Biol
, vol.5
, pp. 94-100
-
-
Rafalski, A.1
-
72
-
-
44949109321
-
Discovery and detection of single nucleotide polymorphism (SNP) in coding and genomic sequences in chickpea (Cicer arietinum L.)
-
Rajesh, P. N., and Muehlbauer, F. J. (2008). Discovery and detection of single nucleotide polymorphism (SNP) in coding and genomic sequences in chickpea (Cicer arietinum L.). Euphytica 162, 291-300. doi: 10.1007/s10681-008-9675-8
-
(2008)
Euphytica
, vol.162
, pp. 291-300
-
-
Rajesh, P.N.1
Muehlbauer, F.J.2
-
73
-
-
79952986976
-
Modulation of transcription factor and metabolic pathway genes in response to water-deficit stress in rice. Funct. Integr
-
Ray, S., Dansana, P. K., Giri, J., Deveshwar, P., Arora, R., Agarwal, P., et al. (2011). Modulation of transcription factor and metabolic pathway genes in response to water-deficit stress in rice. Funct. Integr. Genomics 11, 157-178. doi: 10.1007/s10142-010-0187-y
-
(2011)
Genomics
, vol.11
, pp. 157-178
-
-
Ray, S.1
Dansana, P.K.2
Giri, J.3
Deveshwar, P.4
Arora, R.5
Agarwal, P.6
-
74
-
-
84861875050
-
Genome-wide association mapping of leaf metabolic profiles for dissecting complex traits in maize
-
Riedelsheimer, C., Lisec, J., Czedik-Eysenberg, A., Sulpice, R., Flis, A., Grieder, C., et al. (2012). Genome-wide association mapping of leaf metabolic profiles for dissecting complex traits in maize. Proc. Natl. Acad. Sci. U.S.A. 109,8872-8877. doi: 10.1073/pnas.1120813109
-
(2012)
Proc. Natl. Acad. Sci. U.S.A
, vol.109
, pp. 8872-8877
-
-
Riedelsheimer, C.1
Lisec, J.2
Czedik-Eysenberg, A.3
Sulpice, R.4
Flis, A.5
Grieder, C.6
-
75
-
-
84883746158
-
Single nucleotide polymorphism genotyping for breeding and genetics applications in chickpea and pigeonpea using the BeadXpress platform
-
Roorkiwal, M., Sawargaonkar, S. L., Chitikineni, A., Thudi, M., Saxena, R. K., Upadhyaya, H. D., et al. (2013). Single nucleotide polymorphism genotyping for breeding and genetics applications in chickpea and pigeonpea using the BeadXpress platform. Plant Genome 6, 1-10. doi: 10.3835/plantgenome2013.05.0017
-
(2013)
Plant Genome
, vol.6
, pp. 1-10
-
-
Roorkiwal, M.1
Sawargaonkar, S.L.2
Chitikineni, A.3
Thudi, M.4
Saxena, R.K.5
Upadhyaya, H.D.6
-
76
-
-
84904734147
-
A chromosomal genomics approach to assess and validate the desi and kabuli draft chickpea genome assemblies
-
Ruperao, P., Chan, C. K., Azam, S., Karafiatova, M., Hayashi, S., Cizkova, J., et al. (2014). A chromosomal genomics approach to assess and validate the desi and kabuli draft chickpea genome assemblies. Plant Biotechnol. J. 12, 778-786. doi: 10.1111/pbi.12182
-
(2014)
Plant Biotechnol. J
, vol.12
, pp. 778-786
-
-
Ruperao, P.1
Chan, C.K.2
Azam, S.3
Karafiatova, M.4
Hayashi, S.5
Cizkova, J.6
-
77
-
-
84881554353
-
Molecular mapping of QTLs for resistance to Fusarium wilt (Race 1) and Ascochyta blight in chickpea (Cicer arietinum L.)
-
Sabbavarapu, M. M., Sharma, M., Chamarthi, S. K., Swapna, N., Rathore, A., Thudi, M., et al. (2013). Molecular mapping of QTLs for resistance to Fusarium wilt (race 1) and Ascochyta blight in chickpea (Cicer arietinum L.). Euphytica 193, 121-133. doi: 10.1007/s10681-013-0959-2
-
(2013)
Euphytica
, vol.193
, pp. 121-133
-
-
Sabbavarapu, M.M.1
Sharma, M.2
Chamarthi, S.K.3
Swapna, N.4
Rathore, A.5
Thudi, M.6
-
78
-
-
0035865322
-
A map of human genome sequence variation containing 42 million single nucleotide polymorphisms
-
Sachidanandam, R., Weissman, D., Schmidt, S. C., Kakol, J. M., Stein, L. D., Marth, G., et al. (2001). A map of human genome sequence variation containing 42 million single nucleotide polymorphisms. Nature 409, 928-933. doi: 10.1038/35057149
-
(2001)
Nature
, vol.409
, pp. 928-933
-
-
Sachidanandam, R.1
Weissman, D.2
Schmidt, S.C.3
Kakol, J.M.4
Stein, L.D.5
Marth, G.6
-
79
-
-
84866927904
-
Patterns of linkage disequilibrium and association mapping in diploid alfalfa (M. sativa L.)
-
Sakiroglu, M., Sherman-Broyles, S., Story, A., Moore, K. J., Doyle, J. J., and Charles Brummer, E. (2012). Patterns of linkage disequilibrium and association mapping in diploid alfalfa (M. sativa L.). Theor. Appl. Genet. 125, 577-590. doi: 10.1007/s00122-012-1854-2
-
(2012)
Theor. Appl. Genet
, vol.125
, pp. 577-590
-
-
Sakiroglu, M.1
Sherman-Broyles, S.2
Story, A.3
Moore, K.J.4
Doyle, J.J.5
Charles Brummer, E.6
-
80
-
-
16644385379
-
Functional analysis of methylthioribose kinase genes in plants
-
Sauter, M., Cornell, K. A., Beszteri, S., and Rzewuski, G. (2004). Functional analysis of methylthioribose kinase genes in plants. Plant Physiol. 136, 4061-4071. doi: 10.1104/pp.104.053587
-
(2004)
Plant Physiol
, vol.136
, pp. 4061-4071
-
-
Sauter, M.1
Cornell, K.A.2
Beszteri, S.3
Rzewuski, G.4
-
81
-
-
84922450139
-
An integrated genomic approach for rapid delineation of candidate genes regulating agro-morphological traits in chickpea
-
Saxena, M. S., Bajaj, D., Das, S., Kujur, A., Kumar, V., Singh, M., et al. (2014b). An integrated genomic approach for rapid delineation of candidate genes regulating agro-morphological traits in chickpea. DNA Res. 21, 695-710. doi: 10.1093/dnares/dsu031
-
(2014)
DNA Res
, vol.21
, pp. 695-710
-
-
Saxena, M.S.1
Bajaj, D.2
Das, S.3
Kujur, A.4
Kumar, V.5
Singh, M.6
-
82
-
-
84907185297
-
Natural allelic diversity, genetic structure and linkage disequilibrium pattern in wild chickpea
-
Saxena, M. S., Bajaj, D., Kujur, A., Das, S., Badoni, S., Kumar, V., et al. (2014a). Natural allelic diversity, genetic structure and linkage disequilibrium pattern in wild chickpea. PLoS ONE 9:e107484. doi: 10.1371/journal.pone. 0107484
-
(2014)
Plos ONE
, vol.9
-
-
Saxena, M.S.1
Bajaj, D.2
Kujur, A.3
Das, S.4
Badoni, S.5
Kumar, V.6
-
83
-
-
70450202132
-
The B73 maize genome: Complexity, diversity, and dynamics
-
Schnable, P. S., Ware, D., Fulton, R. S., Stein, J. C., Wei, F., Pasternak, S., et al. (2009). The B73 maize genome: complexity, diversity, and dynamics. Science 326, 1112-1115. doi: 10.1126/science.1178534
-
(2009)
Science
, vol.326
, pp. 1112-1115
-
-
Schnable, P.S.1
Ware, D.2
Fulton, R.S.3
Stein, J.C.4
Wei, F.5
Pasternak, S.6
-
84
-
-
84872789979
-
An improved genotyping by sequencing (GBS) approach offering increased versatility and efficiency of SNP discovery and genotyping
-
Sonah, H., Bastien, M., Iquira, E., Tardivel, A., Legare, G., Boyle, B., et al. (2013). An improved genotyping by sequencing (GBS) approach offering increased versatility and efficiency of SNP discovery and genotyping. PLoS ONE 8:e54603. doi: 10.1371/journal.pone.0054603
-
(2013)
Plos ONE
, vol.8
-
-
Sonah, H.1
Bastien, M.2
Iquira, E.3
Tardivel, A.4
Legare, G.5
Boyle, B.6
-
85
-
-
84922724028
-
Identification of loci governing eight agronomic traits using a GBS-GWAS approach and validation by QTL mapping in soybean
-
Sonah, H., O’Donoughue, L., Cober, E., Rajcan, I., and Belzile, F. (2014). Identification of loci governing eight agronomic traits using a GBS-GWAS approach and validation by QTL mapping in soybean. Plant Biotechnol. J. 13, 211-221. doi: 10.1111/pbi. 12249
-
(2014)
Plant Biotechnol. J
, vol.13
, pp. 211-221
-
-
Sonah, H.1
O’Donoughue, L.2
Cober, E.3
Rajcan, I.4
Belzile, F.5
-
86
-
-
84887613153
-
Bridging the genotyping gap: Using genotyping by sequencing (GBS) to add high-density SNP markers and new value to traditional bi-parental mapping and breeding populations
-
Spindel, J., Wright, M., Chen, C., Cobb, J., Gage, J., Harrington, S., et al. (2013). Bridging the genotyping gap: using genotyping by sequencing (GBS) to add high-density SNP markers and new value to traditional bi-parental mapping and breeding populations. Theor. Appl. Genet. 126, 2699-2716. doi: 10.1007/s00122-013-2166-x
-
(2013)
Theor. Appl. Genet
, vol.126
, pp. 2699-2716
-
-
Spindel, J.1
Wright, M.2
Chen, C.3
Cobb, J.4
Gage, J.5
Harrington, S.6
-
87
-
-
84890872120
-
Genetic marker discovery, intraspecific linkage map construction and quantitative trait locus analysis of Ascochyta blight resistance in chickpea (Cicer arietinum L.)
-
Stephens, A., Lombardi, M., Cogan, N. O. I., Forster, J. W., Hobson, K., Materne, M., et al. (2014). Genetic marker discovery, intraspecific linkage map construction and quantitative trait locus analysis of Ascochyta blight resistance in chickpea (Cicer arietinum L.). Mol. Breed. 33, 297-313. doi: 10.1007/s11032-013-9950-9
-
(2014)
Mol. Breed
, vol.33
, pp. 297-313
-
-
Stephens, A.1
Lombardi, M.2
Cogan, N.3
Forster, J.W.4
Hobson, K.5
Materne, M.6
-
88
-
-
84863565805
-
Genome-wide DNA polymorphisms in elite indica rice inbreds discovered by whole-genome sequencing
-
Subbaiyan, G. K., Waters, D. L., Katiyar, S. K., Sadananda, A. R., Vaddadi, S., and Henry, R. J. (2012). Genome-wide DNA polymorphisms in elite indica rice inbreds discovered by whole-genome sequencing. Plant Biotechnol. J. 10, 623-634. doi: 10.1111/j.1467-7652.2011.00676.x
-
(2012)
Plant Biotechnol. J
, vol.10
, pp. 623-634
-
-
Subbaiyan, G.K.1
Waters, D.L.2
Katiyar, S.K.3
Sadananda, A.R.4
Vaddadi, S.5
Henry, R.J.6
-
89
-
-
79957613599
-
MEGA5: Molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods
-
Tamura, K., Peterson, D., Peterson, N., Stecher, G., Nei, M., and Kumar, S. (2011). MEGA5: molecular evolutionary genetics analysis using maximum likelihood, evolutionary distance, and maximum parsimony methods. Mol. Biol. Evol. 28, 2731-2739. doi: 10.1093/molbev/msr121
-
(2011)
Mol. Biol. Evol
, vol.28
, pp. 2731-2739
-
-
Tamura, K.1
Peterson, D.2
Peterson, N.3
Stecher, G.4
Nei, M.5
Kumar, S.6
-
90
-
-
84903735544
-
Rapid identification of alleles at the soybean maturity gene E3 using genotyping by sequencing and a haplotype-based approach
-
Tardivel, A., Sonah, H., Belzile, F., and O’Donoughue, L. S. (2014). Rapid identification of alleles at the soybean maturity gene E3 using genotyping by sequencing and a haplotype-based approach. Plant Genome 4, 106-111. doi: 10.3835/plantgenome2013.10.0034
-
(2014)
Plant Genome
, vol.4
, pp. 106-111
-
-
Tardivel, A.1
Sonah, H.2
Belzile, F.3
O’Donoughue, L.S.4
-
91
-
-
84863143122
-
Current state-of-art of sequencing technologies for plant genomics research
-
Thudi, M., Li, Y., Jackson, S. A., May, G. D., and Varshney, R. K. (2012). Current state-of-art of sequencing technologies for plant genomics research. Brief. Funct. Genomics 11, 3-11. doi: 10.1093/bfgp/elr045
-
(2012)
Brief. Funct. Genomics
, vol.11
, pp. 3-11
-
-
Thudi, M.1
Li, Y.2
Jackson, S.A.3
May, G.D.4
Varshney, R.K.5
-
92
-
-
84900397393
-
Genetic dissection of drought and heat tolerance in chickpea through genome-wide and candidate gene-based association mapping approaches
-
Thudi, M., Upadhyaya, H. D., Rathore, A., Gaur, P. M., Krishnamurthy, L., Roorki-wal, M., et al. (2014). Genetic dissection of drought and heat tolerance in chickpea through genome-wide and candidate gene-based association mapping approaches. PLoS ONE 9:e96758. doi: 10.1371/journal.pone.0096758
-
(2014)
Plos ONE
, vol.9
-
-
Thudi, M.1
Upadhyaya, H.D.2
Rathore, A.3
Gaur, P.M.4
Krishnamurthy, L.5
Roorki-Wal, M.6
-
93
-
-
84879437642
-
Retrospective genomic analysis of sorghum adaptation to temperate-zone grain production
-
Thurber, C. S., Ma, J. M., Higgins, R. H., and Brown, P. J. (2013). Retrospective genomic analysis of sorghum adaptation to temperate-zone grain production. Genome Biol. 14:R68. doi: 10.1186/gb-2013-14-6-r68
-
(2013)
Genome Biol
, vol.14
, pp. R68
-
-
Thurber, C.S.1
Ma, J.M.2
Higgins, R.H.3
Brown, P.J.4
-
94
-
-
58149460233
-
A note on the evolution ofkabuli chickpeas as shown byinduced mutations in Cicer reticulatum Ladizinsky
-
Toker, C. (2009). A note on the evolution ofkabuli chickpeas as shown byinduced mutations in Cicer reticulatum Ladizinsky. Genet. Resour. Crop. Evol. 56, 7-12. doi: 10.1007/s10722-008-9336-8
-
(2009)
Genet. Resour. Crop. Evol
, vol.56
, pp. 7-12
-
-
Toker, C.1
-
95
-
-
0038115620
-
Genetic dissection of pathotype-specific resistance to Ascochyta blight disease in chickpea (Cicer arietinum L.) using microsatellite markers
-
Udupa, S. M., and Baum, M. (2003). Genetic dissection of pathotype-specific resistance to Ascochyta blight disease in chickpea (Cicer arietinum L.) using microsatellite markers. Theor. Appl. Genet. 106, 1196-1202. doi: 10.1007/s00122-002-1168-x
-
(2003)
Theor. Appl. Genet
, vol.106
, pp. 1196-1202
-
-
Udupa, S.M.1
Baum, M.2
-
96
-
-
84877268772
-
A next-generation sequencing method for genotyping-by-sequencing of highly heterozygous autotetraploid potato
-
Uitdewilligen, J. G. M. L., Wolters, A. M. A., D’Hoop, B. B., Borm, T. J. A., Visser, R. G. F., and van Eck, H. J. (2013). A next-generation sequencing method for genotyping-by-sequencing of highly heterozygous autotetraploid potato. PLoS ONE 8:e62355. doi: 10.1371/journal.pone.0062355
-
(2013)
Plos ONE
, vol.8
-
-
Uitdewilligen, J.1
Wolters, A.2
D’Hoop, B.B.3
Borm, T.4
Visser, R.5
Van Eck, H.J.6
-
97
-
-
0035129097
-
Development of a chickpea core subset using geographic distribution and quantitative traits
-
Upadhyaya, H. D., Bramel, P. J., and Singh, S. (2001). Development of a chickpea core subset using geographic distribution and quantitative traits. Crop Sci. 41, 206-210. doi: 10.2135/cropsci2001.411206x
-
(2001)
Crop Sci
, vol.41
, pp. 206-210
-
-
Upadhyaya, H.D.1
Bramel, P.J.2
Singh, S.3
-
98
-
-
56549122163
-
Genetic structure, diversity, and allelic richness in composite collection and reference set in chickpea (Cicer arietinum L.)
-
Upadhyaya, H. D., Dwivedi, S. L., Baum, M., Varshney, R. K., Udupa, S. M., Gowda, C. L., et al. (2008). Genetic structure, diversity, and allelic richness in composite collection and reference set in chickpea (Cicer arietinum L.). BMC Plant Biol. 8:106. doi: 10.1186/1471-2229-8-106
-
(2008)
BMC Plant Biol
, vol.8
, pp. 106
-
-
Upadhyaya, H.D.1
Dwivedi, S.L.2
Baum, M.3
Varshney, R.K.4
Udupa, S.M.5
Gowda, C.L.6
-
99
-
-
0034951896
-
A mini core subset for capturing diversity and promoting utilization of chickpea genetic resources in crop improvement. Theor. Appl
-
Upadhyaya, H. D., and Ortiz, R. (2001). A mini core subset for capturing diversity and promoting utilization of chickpea genetic resources in crop improvement. Theor. Appl. Genet. 102, 1292-1298. doi: 10.1007/s00122-001-0556-y
-
(2001)
Genet
, vol.102
, pp. 1292-1298
-
-
Upadhyaya, H.D.1
Ortiz, R.2
-
100
-
-
43149110423
-
Complexity reduction of polymorphic sequences (CRoPS): A novel approach for large-scale polymorphism discovery in complex genomes
-
van Orsouw, N. J., Hogers, R. C., Janssen, A., Yalcin, F., Snoeijers, S., Verstege,, et al. (2007). Complexity reduction of polymorphic sequences (CRoPS): a novel approach for large-scale polymorphism discovery in complex genomes. PLoS ONE 2:e1172. doi: 10.1371/journal.pone.0001172
-
(2007)
Plos ONE
, vol.2
-
-
Van Orsouw, N.J.1
Hogers, R.C.2
Janssen, A.3
Yalcin, F.4
Snoeijers, Verstege, S.5
-
101
-
-
40149098690
-
SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries
-
van Tassell, C. P., Smith, T. P., Matukumalli, L. K., Taylor, J. F., Schnabel, R. D., Lawley, C. T., et al. (2008). SNP discovery and allele frequency estimation by deep sequencing of reduced representation libraries. Nat. Methods 5, 247-252. doi: 10.1038/nmeth.1185
-
(2008)
Nat. Methods
, vol.5
, pp. 247-252
-
-
Van Tassell, C.P.1
Smith, T.P.2
Matukumalli, L.K.3
Taylor, J.F.4
Schnabel, R.D.5
Lawley, C.T.6
-
102
-
-
84890711827
-
Fast-track introgression of “QTL-hotspot” for root traits and other drought tolerance trait in JG 11, an elite and leading variety of chickpea (Cicer arietinum L.)
-
Varshney, R. K., Gaur, P. M., Chamarthi, S. K., Krishnamurthy, L., Tripathi, S., Kashiwagi, J., et al. (2013b). Fast-track introgression of “QTL-hotspot” for root traits and other drought tolerance trait in JG 11, an elite and leading variety of chickpea (Cicer arietinum L.). Plant Genome 6, 1-9. doi: 10.3835/plantgenome2013.07.0022
-
(2013)
Plant Genome
, vol.6
, pp. 1-9
-
-
Varshney, R.K.1
Gaur, P.M.2
Chamarthi, S.K.3
Krishnamurthy, L.4
Tripathi, S.5
Kashiwagi, J.6
-
103
-
-
84897377529
-
Marker-assisted backcrossing to introgress resistance to Fusarium wilt race 1 and Ascochyta blight in C214, an elite cul-tivar of chickpea
-
Varshney, R. K., Mohan, S. M., Gaur, P. M., Chamarthi, S. K., Singh, V. K., Srinivasan, S., et al. (2014b). Marker-assisted backcrossing to introgress resistance to Fusarium wilt race 1 and Ascochyta blight in C214, an elite cul-tivar of chickpea. Plant Genome 7, 1-11. doi: 10.3835/plantgenome2013. 10.0035
-
(2014)
Plant Genome
, vol.7
, pp. 1-11
-
-
Varshney, R.K.1
Mohan, S.M.2
Gaur, P.M.3
Chamarthi, S.K.4
Singh, V.K.5
Srinivasan, S.6
-
104
-
-
71049140849
-
Development of cost-effective SNP assays for chickpea genome analysis and breeding
-
Varshney, R. K., Nayak, S., Jayashree, B., Eshwar, K., Upadhyaya, H. D., and Hois-ington, D. A. (2007). Development of cost-effective SNP assays for chickpea genome analysis and breeding. J. Sat. Agri. Res. 3, 29-31.
-
(2007)
J. Sat. Agri. Res
, vol.3
, pp. 29-31
-
-
Varshney, R.K.1
Nayak, S.2
Jayashree, B.3
Eshwar, K.4
Upadhyaya, H.D.5
Hois-Ington, D.A.6
-
105
-
-
84875176954
-
Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement
-
Varshney, R. K., Song, C., Saxena, R. K., Azam, S., Yu, S., Sharpe, A. G., et al. (2013a). Draft genome sequence of chickpea (Cicer arietinum) provides a resource for trait improvement. Nat. Biotechnol. 31, 240-246. doi: 10.1038/nbt.2491
-
(2013)
Nat. Biotechnol
, vol.31
, pp. 240-246
-
-
Varshney, R.K.1
Song, C.2
Saxena, R.K.3
Azam, S.4
Yu, S.5
Sharpe, A.G.6
-
106
-
-
84900445403
-
Genetic dissection of drought tolerance in chickpea (Cicer arietinum L.)
-
Varshney, R. K., Thudi, M., Nayak, S. N., Gaur, P. M., Kashiwagi, J., Krishna-murthy, L., et al. (2014a). Genetic dissection of drought tolerance in chickpea (Cicer arietinum L.). Theor. Appl. Genet. 127, 445-462. doi: 10.1007/s00122-013-2230-6
-
(2014)
Theor. Appl. Genet
, vol.127
, pp. 445-462
-
-
Varshney, R.K.1
Thudi, M.2
Nayak, S.N.3
Gaur, P.M.4
Kashiwagi, J.5
Krishna-Murthy, L.6
-
107
-
-
0032524383
-
Large-scale identification, mapping, and genotyping of single-nucleotide polymorphisms in the human genome
-
Wang, D. G., Fan, J.-B., Siao, C. J., Berno, A., Young, P., Sapolsky, R., et al. (1998). Large-scale identification, mapping, and genotyping of single-nucleotide polymorphisms in the human genome. Science 280, 1077-1082. doi: 10.1126/science.280.5366.1077
-
(1998)
Science
, vol.280
, pp. 1077-1082
-
-
Wang, D.G.1
Fan, J.-B.2
Siao, C.J.3
Berno, A.4
Young, P.5
Sapolsky, R.6
-
108
-
-
70349637505
-
Soybean GmPHD-type transcription regulators improve stress tolerance in transgenic Arabidopsis plants
-
Wei, W., Huang, J., Hao, Y. J., Zou, H. F., Wang, H. W., Zhao, J. Y., et al. (2009). Soybean GmPHD-type transcription regulators improve stress tolerance in transgenic Arabidopsis plants. PLoS ONE 4:e7209. doi: 10.1371/jour-nal.pone.0007209
-
(2009)
Plos ONE
, vol.4
-
-
Wei, W.1
Huang, J.2
Hao, Y.J.3
Zou, H.F.4
Wang, H.W.5
Zhao, J.Y.6
-
109
-
-
84866900600
-
Genetic structure and linkage disequilibrium pattern of a rapeseed (Brassica napus L.) association mapping panel revealed by microsatellites
-
Xiao, Y., Cai, D., Yang, W., Ye, W., Younas, M., Wu, J., et al. (2012). Genetic structure and linkage disequilibrium pattern of a rapeseed (Brassica napus L.) association mapping panel revealed by microsatellites. Theor. Appl. Genet. 125, 437-447. doi: 10.1007/s00122-012-1843-5
-
(2012)
Theor. Appl. Genet
, vol.125
, pp. 437-447
-
-
Xiao, Y.1
Cai, D.2
Yang, W.3
Ye, W.4
Younas, M.5
Wu, J.6
-
110
-
-
84862936211
-
Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomi-callyimportantgenes
-
Xu, X., Liu, X., Ge, S., Jensen, J. D., Hu, F., Li, X., et al. (2012). Resequencing 50 accessions of cultivated and wild rice yields markers for identifying agronomi-callyimportantgenes. Nat. Biotechnol. 30, 105-111. doi: 10.1038/nbt.2050
-
(2012)
Nat. Biotechnol
, vol.30
, pp. 105-111
-
-
Xu, X.1
Liu, X.2
Ge, S.3
Jensen, J.D.4
Hu, F.5
Li, X.6
-
111
-
-
79952299301
-
Gains in QTL detection using an ultra-high density SNP map based on population sequencing relative to traditional RFLP/SSR markers
-
Yu, H., Xie, W., Wang, J., Xing, Y., Xu, C., Li, X., et al. (2011). Gains in QTL detection using an ultra-high density SNP map based on population sequencing relative to traditional RFLP/SSR markers. PLoS ONE 6:e17595. doi: 10.1371/annotation/f2eb75fb-ae22-4a57-b828-1506aa506c6d
-
(2011)
Plos ONE
, vol.6
-
-
Yu, H.1
Xie, W.2
Wang, J.3
Xing, Y.4
Xu, C.5
Li, X.6
-
112
-
-
84876008965
-
A central role for thiols in plant tolerance to abiotic stress
-
Zagorchev, L., Seal, C. E., Kranner, I., and Odjakova, M. (2013). A central role for thiols in plant tolerance to abiotic stress. Int. J. Mol. Sci. 14, 7405-7432. doi: 10.3390/ijms14047405
-
(2013)
Int. J. Mol. Sci
, vol.14
, pp. 7405-7432
-
-
Zagorchev, L.1
Seal, C.E.2
Kranner, I.3
Odjakova, M.4
-
113
-
-
80053388300
-
Genome-wide association mapping reveals a rich genetic architecture of complextraits in Oryza sativa. Nat
-
Zhao, K., Tung, C. W., Eizenga, G. C., Wright, M. H., Ali, M. L., Price, A. H., et al. (2011). Genome-wide association mapping reveals a rich genetic architecture of complextraits in Oryza sativa. Nat. Commun. 2,467. doi: 10.1038/ncomms1467
-
(2011)
Commun
, vol.2
, pp. 467
-
-
Zhao, K.1
Tung, C.W.2
Eizenga, G.C.3
Wright, M.H.4
Ali, M.L.5
Price, A.H.6
|