scholarly journals Quantitative Trait Loci Analysis of Water and Anion Contents in Interaction With Nitrogen Availability in Arabidopsis thaliana

Genetics ◽  
2003 ◽  
Vol 163 (2) ◽  
pp. 711-722 ◽  
Author(s):  
Olivier Loudet ◽  
Sylvain Chaillou ◽  
Anne Krapp ◽  
Françoise Daniel-Vedele
Keyword(s):  
Arabidopsis Thaliana ◽  
Genetic Variation ◽  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Genetic Basis ◽  
Nitrogen Availability ◽  
Recombinant Inbred Lines ◽  
Transport Systems ◽  
New Genes ◽  
Trait Loci

Abstract In plants, water and anion parameters are linked, for example through the integration of nutritional signaling and the response to diverse stress. In this work, Arabidopsis thaliana is used as a model system to dissect the genetic variation of these parameters by quantitative trait loci (QTL) mapping in the 415 recombinant inbred lines of the Bay-0 × Shahdara population. Water, nitrate, chloride, and phosphate contents were measured at the vegetative stage in the shoots of plants grown in controlled conditions. Two contrasting nitrogen (N) conditions were studied, one leading to the complete depletion of the nitrate pool in the plants. Most of the observed genetic variation was identified as QTL, with medium but also large phenotypic contributions. QTL colocalization provides a genetic basis for the correlation between water and nitrate contents in nonlimiting N conditions and water and chloride contents in limiting N conditions. The 34 new QTL described here represent at least 19 loci polymorphic between Bay-0 and Shahdara; some may correspond to known genes from water/anion transport systems, while others clearly identify new genes controlling or interacting with water/anion absorption and accumulation. Interestingly, flowering-time genes probably play a role in the regulation of water content in our conditions.

scholarly journals Quantitative Trait Loci Responsible for Variation in Sexually Dimorphic Traits in Drosophila melanogaster

Genetics ◽  
2003 ◽  
Vol 163 (2) ◽  
pp. 771-787 ◽  
Author(s):  
Artyom Kopp ◽  
Rita M Graze ◽  
Shizhong Xu ◽  
Sean B Carroll ◽  
Sergey V Nuzhdin
Keyword(s):  
Drosophila Melanogaster ◽  
Genetic Variation ◽  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Genetic Basis ◽  
Morphological Evolution ◽  
Recombinant Inbred Lines ◽  
Natural Populations ◽  
Sexually Dimorphic ◽  
Trait Loci

Abstract To understand the mechanisms of morphological evolution and species divergence, it is essential to elucidate the genetic basis of variation in natural populations. Sexually dimorphic characters, which evolve rapidly both within and among species, present attractive models for addressing these questions. In this report, we map quantitative trait loci (QTL) responsible for variation in sexually dimorphic traits (abdominal pigmentation and the number of ventral abdominal bristles and sex comb teeth) in a natural population of Drosophila melanogaster. To capture the pattern of genetic variation present in the wild, a panel of recombinant inbred lines was created from two heterozygous flies taken directly from nature. High-resolution mapping was made possible by cytological markers at the average density of one per 2 cM. We have used a new Bayesian algorithm that allows QTL mapping based on all markers simultaneously. With this approach, we were able to detect small-effect QTL that were not evident in single-marker analyses. Our results show that at least for some sexually dimorphic traits, a small number of QTL account for the majority of genetic variation. The three strongest QTL account for >60% of variation in the number of ventral abdominal bristles. Strikingly, a single QTL accounts for almost 60% of variation in female abdominal pigmentation. This QTL maps to the chromosomal region that Robertson et al. have found to affect female abdominal pigmentation in other populations of D. melanogaster. Using quantitative complementation tests, we demonstrate that this QTL is allelic to the bric a brac gene, whose expression has previously been shown to correlate with interspecific differences in pigmentation. Multiple bab alleles that confer distinct phenotypes appear to segregate in natural populations at appreciable frequencies, suggesting that intraspecific and interspecific variation in abdominal pigmentation may share a similar genetic basis.

scholarly journals Quantitative Trait Loci Analysis of Powdery Mildew Disease Resistance in the Arabidopsis thaliana Accession Kashmir-1

Genetics ◽  
2001 ◽  
Vol 158 (3) ◽  
pp. 1301-1309 ◽  
Author(s):  
Iain W Wilson ◽  
Céline L Schiff ◽  
Douglas E Hughes ◽  
Shauna C Somerville
Keyword(s):  
Arabidopsis Thaliana ◽  
Disease Resistance ◽  
Quantitative Trait Loci ◽  
Powdery Mildew ◽  
Quantitative Trait ◽  
Recombinant Inbred Lines ◽  
Trait Loci ◽  
Powdery Mildew Disease ◽  
Model Plant Arabidopsis Thaliana ◽  
Chromosome Iii

Abstract Powdery mildew diseases are economically important diseases, caused by obligate biotrophic fungi of the Erysiphales. To understand the complex inheritance of resistance to the powdery mildew disease in the model plant Arabidopsis thaliana, quantitative trait loci analysis was performed using a set of recombinant inbred lines derived from a cross between the resistant accession Kashmir-1 and the susceptible accession Columbia glabrous1. We identified and mapped three independent powdery mildew quantitative disease resistance loci, which act additively to confer disease resistance. The locus with the strongest effect on resistance was mapped to a 500-kbp interval on chromosome III.

scholarly journals Genotype-Environment Interaction for Quantitative Trait Loci Affecting Life Span in Drosophila melanogaster

Genetics ◽  
2000 ◽  
Vol 154 (1) ◽  
pp. 213-227 ◽  
Author(s):  
Cristina Vieira ◽  
Elena G Pasyukova ◽  
Zhao-Bang Zeng ◽  
J Brant Hackett ◽  
Richard F Lyman ◽  
...  
Keyword(s):  
Genetic Variation ◽  
Quantitative Trait Loci ◽  
Life Span ◽  
Quantitative Trait ◽  
Recombinant Inbred Lines ◽  
Adult Life ◽  
Environment Interaction ◽  
Mapping Procedure ◽  
Genotype Environment Interaction ◽  
Trait Loci

Abstract The nature of genetic variation for Drosophila longevity in a population of recombinant inbred lines was investigated by estimating quantitative genetic parameters and mapping quantitative trait loci (QTL) for adult life span in five environments: standard culture conditions, high and low temperature, and heat-shock and starvation stress. There was highly significant genetic variation for life span within each sex and environment. In the analysis of variance of life span pooled over sexes and environments, however, the significant genetic variation appeared in the genotype × sex and genotype × environment interaction terms. The genetic correlation of longevity across the sexes and environments was not significantly different from zero in these lines. We estimated map positions and effects of QTL affecting life span by linkage to highly polymorphic roo transposable element markers, using a multiple-trait composite interval mapping procedure. A minimum of 17 QTL were detected; all were sex and/or environment-specific. Ten of the QTL had sexually antagonistic or antagonistic pleiotropic effects in different environments. These data provide support for the pleiotropy theory of senescence and the hypothesis that variation for longevity might be maintained by opposing selection pressures in males and females and variable environments. Further work is necessary to assess the generality of these results, using different strains, to determine heterozygous effects and to map the life span QTL to the level of genetic loci.

scholarly journals Mapping Quantitative Trait Loci Affecting Arabidopsis thaliana Seed Morphology Features Extracted Computationally From Images

2013 ◽  
Vol 3 (1) ◽  
pp. 109-118 ◽  
Author(s):  
Candace R Moore ◽  
David S Gronwall ◽  
Nathan D Miller ◽  
Edgar P Spalding
Keyword(s):  
Arabidopsis Thaliana ◽  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Recombinant Inbred ◽  
Recombinant Inbred Lines ◽  
Major Axis ◽  
Seed Morphology ◽  
Size And Shape ◽  
Trait Loci ◽  
Axis Length

Abstract Seeds are studied to understand dispersal and establishment of the next generation, as units of agricultural yield, and for other important reasons. Thus, elucidating the genetic architecture of seed size and shape traits will benefit basic and applied plant biology research. This study sought quantitative trait loci (QTL) controlling the size and shape of Arabidopsis thaliana seeds by computational analysis of seed phenotypes in recombinant inbred lines derived from the small-seeded Landsberg erecta × large-seeded Cape Verde Islands accessions. On the order of 103 seeds from each recombinant inbred line were automatically measured with flatbed photo scanners and custom image analysis software. The eight significant QTL affecting seed area explained 63% of the variation, and overlapped with five of the six major-axis (length) QTL and three of the five minor-axis (width) QTL, which accounted for 57% and 38% of the variation in those traits, respectively. Because the Arabidopsis seed is exalbuminous, lacking an endosperm at maturity, the results are relatable to embryo length and width. The Cvi allele generally had a positive effect of 2.6–4.0%. Analysis of variance showed heritability of the three traits ranged between 60% and 73%. Repeating the experiment with 2.2 million seeds from a separate harvest of the RIL population and approximately 0.5 million seeds from 92 near-isogenic lines confirmed the aforementioned results. Structured for download are files containing phenotype measurements, all sets of seed images, and the seed trait measuring tool.

scholarly journals Quantitative Trait Loci Controlling Light and Hormone Response in Two Accessions ofArabidopsis thaliana

Genetics ◽  
2002 ◽  
Vol 160 (2) ◽  
pp. 683-696 ◽  
Author(s):  
Justin O Borevitz ◽  
Julin N Maloof ◽  
Jason Lutes ◽  
Tsegaye Dabi ◽  
Joanna L Redfern ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Natural Variation ◽  
Red Light ◽  
Light Response ◽  
Environment Interaction ◽  
Isogenic Line ◽  
Hormone Response ◽  
New Genes ◽  
Trait Loci

AbstractWe have mapped quantitative trait loci (QTL) responsible for natural variation in light and hormone response between the Cape Verde Islands (Cvi) and Landsberg erecta (Ler) accessions of Arabidopsis thaliana using recombinant inbred lines (RILs). Hypocotyl length was measured in four light environments: white, blue, red, and far-red light and in the dark. In addition, white light plus gibberellin (GA) and dark plus the brassinosteroid biosynthesis inhibitor brassinazole (BRZ) were used to detect hormone effects. Twelve QTL were identified that map to loci not previously known to affect light response, as well as loci where candidate genes have been identified from known mutations. Some QTL act in all environments while others show genotype-by-environment interaction. A global threshold was established to identify a significant epistatic interaction between two loci that have few main effects of their own. LIGHT1, a major QTL, has been confirmed in a near isogenic line (NIL) and maps to a new locus with effects in all light environments. The erecta mutation can explain the effect of the HYP2 QTL in the blue, BRZ, and dark environments, but not in far-red. LIGHT2, also confirmed in an NIL, has effects in white and red light and shows interaction with GA. The phenotype and map position of LIGHT2 suggest the photoreceptor PHYB as a candidate gene. Natural variation in light and hormone response thus defines both new genes and known genes that control light response in wild accessions.

Quantitative Trait Loci for Susceptibility to Tapeworm Infection in the Red Flour Beetle

Genetics ◽  
2003 ◽  
Vol 165 (3) ◽  
pp. 1307-1315
Author(s):  
Daibin Zhong ◽  
Aditi Pai ◽  
Guiyun Yan
Keyword(s):  
Quantitative Trait Loci ◽  
Quantitative Trait ◽  
Genetic Basis ◽  
Life Cycles ◽  
Red Flour Beetle ◽  
Phenotypic Variance ◽  
Flour Beetle ◽  
Trait Loci ◽  
Host Ecology ◽  
Tapeworm Infection

Abstract Parasites have profound effects on host ecology and evolution, and the effects of parasites on host ecology are often influenced by the magnitude of host susceptibility to parasites. Many parasites have complex life cycles that require intermediate hosts for their transmission, but little is known about the genetic basis of the intermediate host's susceptibility to these parasites. This study examined the genetic basis of susceptibility to a tapeworm (Hymenolepis diminuta) in the red flour beetle (Tribolium castaneum) that serves as an intermediate host in its transmission. Quantitative trait loci (QTL) mapping experiments were conducted with two independent segregating populations using amplified fragment length polymorphism (AFLP) markers and randomly amplified polymorphic DNA (RAPD) markers. A total of five QTL that significantly affected beetle susceptibility were identified in the two reciprocal crosses. Two common QTL on linkage groups 3 and 6 were identified in both crosses with similar effects on the phenotype, and three QTL were unique to each cross. In one cross, the three main QTL accounted for 29% of the total phenotypic variance and digenic epistasis explained 39% of the variance. In the second cross, the four main QTL explained 62% of the variance and digenic epistasis accounted for only 5% of the variance. The actions of these QTL were either overdominance or underdominance. Our results suggest that the polygenic nature of beetle susceptibility to the parasites and epistasis are important genetic mechanisms for the maintenance of variation within or among beetle strains in susceptibility to tapeworm infection.

Identification of quantitative trait loci underlying lutein content in soybean seeds across multiple environments

2017 ◽  
Vol 155 (8) ◽  
pp. 1263-1271 ◽  
Author(s):  
W. L. TENG ◽  
W. J. FENG ◽  
J. Y. ZHANG ◽  
N. XIA ◽  
J. GUO ◽  
...  
Keyword(s):  
Quantitative Trait Loci ◽  
Phenotypic Variation ◽  
Quantitative Trait ◽  
Average Distance ◽  
Recombinant Inbred Lines ◽  
Chromosome 9 ◽  
Soybean Seeds ◽  
Trait Loci ◽  
Breeding Programmes ◽  
Lutein Content

SUMMARYLutein benefits human health significantly, including that of the eyes, skin and heart. Therefore, increasing lutein content in soybean seeds is an important objective for breeding programmes. However, no information about soybean lutein-related quantitative trait loci (QTL) has been reported, as of 2016. The aim of the present study was to identify QTLs underlying the lutein content in soybean seeds. A population including 129 recombinant inbred lines was developed from the cross between ‘Dongnong46’ (lutein 13·10 µg/g) and ‘L-100’ (lutein 23·96 µg/g), which significantly differed in seed lutein contents. This population was grown in ten environments including Harbin in 2012, 2013, 2014 and 2015; Hulan in 2013, 2014 and 2015; and Acheng in 2013, 2014 and 2015. A total of 213 simple sequence repeat markers were used to construct the genetic linkage map, which covered approximately 3623·39 cM, with an average distance of 17·01 cM between markers. In the present study, eight QTLs associated with lutein content were found initially, which could explain 1·01–19·66% of the observed phenotypic variation in ten different tested environments. The phenotypic contribution of qLU-1 (located near BARC-Satt588 on chromosome 9 (Chr 9; linkage group (LG) K)) was >10% across seven tested environments, while qLU-2 (located near Satt192 of Chr 12 (LG H)) and qLU-3 (located near Satt353 of Chr12 (LGH)) could explain 5–10% of the observed phenotypic variation in more than seven environments, respectively. qLU-5, qLU-6, qLU-7 and qLU-8 could be detected in more than four environments. These eight QTLs were novel, and have considerable potential value for marker-assistant selection of higher lutein content in soybean lines.

scholarly journals Genetic analysis identifies quantitative trait loci controlling rosette mineral concentrations in Arabidopsis thaliana under drought

2009 ◽  
Vol 184 (1) ◽  
pp. 180-192 ◽  
Author(s):  
Artak Ghandilyan ◽  
Luis Barboza ◽  
Sébastien Tisné ◽  
Christine Granier ◽  
Matthieu Reymond ◽  
...  
Keyword(s):  
Arabidopsis Thaliana ◽  
Quantitative Trait Loci ◽  
Genetic Analysis ◽  
Quantitative Trait ◽  
Trait Loci ◽  
Mineral Concentrations
Sign in / Sign up

Export Citation Format

Share Document