Supermodels: sorghum and maize provide mutual insight into the genetics of flowering time

Mace, Emma; Hunt, Colleen H.; Jordan, David R.

doi:10.1007/s00122-013-2059-z

Cited by 89 publications

(94 citation statements)

References 52 publications

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“…Rust infection was visually scored using a 1–9 scale with 1 indicating immune and 9 highly susceptible [5]. Plots were deemed to have flowered when 50% of the plants in the plot had started flowering [59]. The number of days to flowering (DTF) was surveyed as the days needed from sowing to flowering, and height (HGT) was determined at maturity from the soil surface at the base of the culm to the top of the panicle.…”

Section: Methodsmentioning

confidence: 99%

Two distinct classes of QTL determine rust resistance in sorghum

Wang

Mace²,

Hunt

et al. 2014

BMC Plant Biol

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BackgroundAgriculture is facing enormous challenges to feed a growing population in the face of rapidly evolving pests and pathogens. The rusts, in particular, are a major pathogen of cereal crops with the potential to cause large reductions in yield. Improving stable disease resistance is an on-going major and challenging focus for many plant breeding programs, due to the rapidly evolving nature of the pathogen. Sorghum is a major summer cereal crop that is also a host for a rust pathogen Puccinia purpurea, which occurs in almost all sorghum growing areas of the world, causing direct and indirect yield losses in sorghum worldwide, however knowledge about its genetic control is still limited. In order to further investigate this issue, QTL and association mapping methods were implemented to study rust resistance in three bi-parental populations and an association mapping set of elite breeding lines in different environments.ResultsIn total, 64 significant or highly significant QTL and 21 suggestive rust resistance QTL were identified representing 55 unique genomic regions. Comparisons across populations within the current study and with rust QTL identified previously in both sorghum and maize revealed a high degree of correspondence in QTL location. Negative phenotypic correlations were observed between rust, maturity and height, indicating a trend for both early maturing and shorter genotypes to be more susceptible to rust.ConclusionsThe significant amount of QTL co-location across traits, in addition to the consistency in the direction of QTL allele effects, has provided evidence to support pleiotropic QTL action across rust, height, maturity and stay-green, supporting the role of carbon stress in susceptibility to rust. Classical rust resistance QTL regions that did not co-locate with height, maturity or stay-green QTL were found to be significantly enriched for the defence-related NBS-encoding gene family, in contrast to the lack of defence-related gene enrichment in multi-trait effect rust resistance QTL. The distinction of disease resistance QTL hot-spots, enriched with defence-related gene families from QTL which impact on development and partitioning, provides plant breeders with knowledge which will allow for fast-tracking varieties with both durable pathogen resistance and appropriate adaptive traits.Electronic supplementary materialThe online version of this article (doi:10.1186/s12870-014-0366-4) contains supplementary material, which is available to authorized users.

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Section: Methodsmentioning

confidence: 99%

Two distinct classes of QTL determine rust resistance in sorghum

Wang

Mace²,

Hunt

et al. 2014

BMC Plant Biol

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“…The two models differ in their approach to the problem of distinguishing allelic series from linked genes: the nested effects fit by the joint linkage approach are likely to fuse closely linked QTL, whereas the non-nested effects fit by the GWAS approach are likely to split allelic series. The first multiparental mapping study in sorghum applied two similar mapping approaches to identify flowering time QTL in hybrids in a large backcross (BC) NAM population of 24 families crossed to a common tester (Mace et al 2013). All these multiparental studies share a reference design, in which all lines evaluated share at least half of their genome with a common parent.…”

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confidence: 99%

Multiparental Mapping of Plant Height and Flowering Time QTL in Partially Isogenic Sorghum Families

Higgins

Thurber

Assaranurak

et al. 2014

G3 Genes|Genomes|Genetics

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Sorghum varieties suitable for grain production at temperate latitudes show dwarfism and photoperiod insensitivity, both of which are controlled by a small number of loci with large effects. We studied the genetic control of plant height and flowering time in five sorghum families (A–E), each derived from a cross between a tropical line and a partially isogenic line carrying introgressions derived from a common, temperate-adapted donor. A total of 724 F2:3 lines were phenotyped in temperate and tropical environments for plant height and flowering time and scored at 9139 SNPs using genotyping-by-sequencing. Biparental mapping was compared with multiparental mapping in different subsets of families (AB, ABC, ABCD, and ABCDE) using both a GWAS approach, which fit each QTL as a single effect across all families, and using a joint linkage approach, which fit QTL effects as nested within families. GWAS using all families (ABCDE) performed best at the cloned Dw3 locus, whereas joint linkage using all families performed best at the cloned Ma1 locus. Both multiparental approaches yielded apparently synthetic associations due to genetic heterogeneity and were highly dependent on the subset of families used. Comparison of all mapping approaches suggests that a GA2-oxidase underlies Dw1, and that a mir172a gene underlies a Dw1-linked flowering time QTL.

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“…Some related genes have been identified, including VGT1 (vegetative to generative transition 1) (Salvi et al, 2002;Salvi et al, 2007). QTL mapping results have been obtained from many different genetic backgrounds and are useful for understanding flowering-related traits (Beavis et al, 1994;Li et al, 2007;Buckler et al, 2009;Steinhoff et al, 2012;Mace et al, 2013).…”

Section: Discussionmentioning

confidence: 99%

Comparative quantitative trait locus mapping of maize flowering-related traits in an F2:3 and recombinant inbred line population

et al. 2016

Genet. Mol. Res.

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ABSTRACT. Flowering-related traits in maize are affected by complex factors and are important for the improvement of cropping systems in the maize zone. Quantitative trait loci (QTLs) detected using different materials and methods usually vary. In the present study, 266 maize (Zea mays) F 2:3 families and 301 recombinant inbred lines (RIL) derived from a cross between 08-641 (founding parent from southeast China) and Ye478 (founding parent from China) were evaluated for four flowering-related traits, including days to tasseling (DTT), days to pollen shedding (DPS), days to silking (DTS), and anthesis-silking interval. Sixty-six QTLs controlling the target traits were detected in the F 2:3 and RIL populations via single environment analysis and joint analysis across all environments (JAAE). The QTLs explained 0.8-13.47% of the phenotypic variation, with 12 QTLs explaining more than 10%. The results of meta-QTL (MQTL) analysis indicated that 41 QTLs could be integrated into 14 MQTLs. One MQTL included 2.9 QTLs, ranging from two to ten QTLs for one to three traits. QTLs, including MQTL1-1 and MQTL9-1, were detected across the F 2:3 and RIL populations via SAE and JAAE. Among the MQTLs, nine QTLs were integrated into MQTL9-1 and affected DTT, DPS, and DTS, with the favored allele being derived from 08-641. MQTL3-2 showed high phenotypic variation and was suitable for fine mapping to determine the genetic mechanisms of flowering. MQTL3-2 could be applied to improve inbred lines using marker-assisted selection.

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Supermodels: sorghum and maize provide mutual insight into the genetics of flowering time

Cited by 89 publications

References 52 publications

Two distinct classes of QTL determine rust resistance in sorghum

Two distinct classes of QTL determine rust resistance in sorghum

Multiparental Mapping of Plant Height and Flowering Time QTL in Partially Isogenic Sorghum Families

Comparative quantitative trait locus mapping of maize flowering-related traits in an F2:3 and recombinant inbred line population

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