STAIRS: a new genetic resource for functional genomic studies of <i>Arabidopsis</i>

Koumproglou, Rachil; Wilkes, Tim M.; Townson, Paul; Wang, Xiao Y.; Beynon, Jim; Pooni, H S; Newbury, H. J.; Kearsey, M. J.

doi:10.1046/j.1365-313x.2002.01353.x

Cited by 98 publications

(79 citation statements)

References 25 publications

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“…These effects strongly suggest an upward bias of estimates as shown by Melchinger et al (1998) and Utz et al (2000). We have good evidence from other work (Koumproglou et al, 2002) that there is another QTL, located at the top of chromosome III, at which the Col allele also increases height. Jansen et al (1995) also located a QTL affecting leaf number in this location.…”

Section: Qtl Analysis In Arabidopsissupporting

confidence: 77%

Genetics of quantitative traits in Arabidopsis thaliana

2003

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The genetic control of 22 quantitative traits, including developmental rates and sizes, was examined in generations of Arabidopsis thaliana derived from the cross between the ecotypes, Columbia (Col) and Landsberg erecta (Ler). The data were obtained from three sets of families raised in the same trial: the 16 basic generations, that is, parents, F 1 's, F 2 's, backcrosses, recombinant inbred lines (RILs) and a triple test cross (TTC), the latter produced by crossing the RILs to Col, Ler and their F 1 . The data were analysed by two approaches. The first (approach A) involved traditional generation mean and variance component analysis and the second (B), based around the RILs and TTC families, involved marker-based QTL analysis.From (A), genetic differences between Col and Ler were detected for all traits with moderate heritabilities. Height at flowering was the only trait to show heterosis. Dominance was partial to complete for all height traits, and there was no overdominance but there was strong evidence for directional dominance. For most other traits, dominance was ambidirectional and incomplete, with average dominance ratios of around 80%. Epistasis, particularly of the duplicate type that opposes dominance, was a common feature of all traits. The presence of epistasis must imply multiple QTL for all traits.The QTL analysis located 38 significant effects in four regions of chromosomes I, II, IV and V, but not III. QTL affecting rosette size and leaf number were identified in all four regions, with days to maturity on chromosomes IV and V. The only QTL for height was located at the expected position of the erecta gene (chromosome II; 50 cM), but the additive and dominance effects of this single QTL did not adequately explain the generation means. The possible involvement of other interacting height QTL is discussed.

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Section: Qtl Analysis In Arabidopsissupporting

confidence: 77%

Genetics of quantitative traits in Arabidopsis thaliana

2003

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“…ATQ1 was genotyped in the QTL region by analyzing the As(V) tolerance phenotype of F 3 families derived from selected F 2 recombinant plants. To confirm and validate the fine mapping results from F 3 families, we obtained a set of 16 F 4 homozygous NIL with partially overlapping introgression fragments from selected recombinants 39 . Sister plants (16)(17)(18)(19)(20) from selected F 3 families were genotyped around the ATQ1 region, and homozygous recombinant individuals were selected and selfed.…”

Section: Methodsmentioning

confidence: 99%

“…Three replicates of the DarsC strain bearing AtARQ1 variants were grown in liquid LB medium with shaking (37°C, overnight). The OD 600 nm was measured, cultures were diluted with low Pi medium 39 to OD 600 nm ¼ 0.2, and allowed to grow alone or in various As(V) concentrations (30°C, 24 h). Bacterial growth in different As(V) concentrations was determined at OD 600 nm .…”

Section: Methodsmentioning

confidence: 99%

Natural variation in arsenate tolerance identifies an arsenate reductase in Arabidopsis thaliana

et al. 2014

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The enormous amount of environmental arsenic was a major factor in determining the biochemistry of incipient life forms early in the Earth's history. The most abundant chemical form in the reducing atmosphere was arsenite, which forced organisms to evolve strategies to manage this chemical species. Following the great oxygenation event, arsenite oxidized to arsenate and the action of arsenate reductases became a central survival requirement. The identity of a biologically relevant arsenate reductase in plants nonetheless continues to be debated. Here we identify a quantitative trait locus that encodes a novel arsenate reductase critical for arsenic tolerance in plants. Functional analyses indicate that several non-additive polymorphisms affect protein structure and account for the natural variation in arsenate reductase activity in Arabidopsis thaliana accessions. This study shows that arsenate reductases are an essential component for natural plant variation in As(V) tolerance.

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“…NILs derived from the Col × Ler cross and in which Ler genomic regions have been introgressed into a Col-0 background were provided by M. Kearsey (University of Birmingham, U.K.) or were obtained from the NASC (Koumproglou et al 2002). NILs originating from the Ler × Cvi cross and in which Cvi-1 genomic regions were introgressed into a Ler background have been developed at the Wageningen Agricultural University (Alonso-Blanco et al 1998a; Keurentjes et al 2007).…”

Section: Plant Materialsmentioning

confidence: 99%

Identification of Quantitative Trait Loci Controlling Symptom Development During Viral Infection inArabidopsis thaliana

Sicard¹,

Keurentjes²,

Candresse³

et al. 2008

MPMI

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In compatible interactions between plants and viruses that result in systemic infection, symptom development is a major phenotypic trait. However, host determinants governing this trait are mostly unknown, and the mechanisms underlying it are still poorly understood. In a previous study on the Arabidopsis thaliana-Plum pox virus (PPV) pathosystem, we showed a large degree of variation in symptom development among susceptible accessions. Two basic types of interaction exist between a virus and its host plant: i) a compatible interaction associated with plant invasion and viral multiplication, followed in most cases by the induction of symptoms, and ii) an incompatible interaction with no or only limited viral multiplication or movement in the host plant. Plant-virus interactions are relatively well documented, but efforts have so far focused on resistance (or resistancebreaking) mechanisms and on the identification of their genetic determinants. Conversely, the one or more mechanisms controlling symptom development in plants are still largely unknown, so that only a very patchy picture of the interaction between a plant and a virus can be presented.

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STAIRS: a new genetic resource for functional genomic studies of Arabidopsis

Cited by 98 publications

References 25 publications

Genetics of quantitative traits in Arabidopsis thaliana

Genetics of quantitative traits in Arabidopsis thaliana

Natural variation in arsenate tolerance identifies an arsenate reductase in Arabidopsis thaliana

Identification of Quantitative Trait Loci Controlling Symptom Development During Viral Infection inArabidopsis thaliana

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