Genetic Mapping Populations for Conducting High-Resolution Trait Mapping in Plants

2018 ◽  
pp. 109-138 ◽  
Author(s):  
James Cockram ◽  
Ian Mackay
Keyword(s):  
High Resolution ◽  
Genetic Mapping ◽  
Trait Mapping ◽  
Mapping Populations

scholarly journals A high resolution genetic mapping of the faded (fe) gene to a region betweenD10mit156andD10mit193on mouse chromosome 10

2013 ◽  
Vol 29 (1) ◽  
pp. 33 ◽  
Author(s):  
Seung-Hun Oh ◽  
Hajin Nam ◽  
Jun-Gyo Suh
Keyword(s):  
High Resolution ◽  
Genetic Mapping ◽  
Mouse Chromosome ◽  
Chromosome 10

scholarly journals High-resolution genetic mapping of mammalian motor activity levels in mice

2009 ◽  
Vol 8 (1) ◽  
pp. 13-22 ◽  
Author(s):  
M. J. H. Kas ◽  
J. G. de Mooij-van Malsen ◽  
M. de Krom ◽  
K. L. I. van Gassen ◽  
H. A. van Lith ◽  
...  
Keyword(s):  
High Resolution ◽  
Motor Activity ◽  
Genetic Mapping ◽  
Activity Levels

scholarly journals High resolution genetic mapping uncovers chitin synthase-1 as the target-site of the structurally diverse mite growth inhibitors clofentezine, hexythiazox and etoxazole in Tetranychus urticae

2014 ◽  
Vol 51 ◽  
pp. 52-61 ◽  
Author(s):  
Peter Demaeght ◽  
Edward J. Osborne ◽  
Jothini Odman-Naresh ◽  
Miodrag Grbić ◽  
Ralf Nauen ◽  
...  
Keyword(s):  
High Resolution ◽  
Genetic Mapping ◽  
Tetranychus Urticae ◽  
Target Site ◽  
Chitin Synthase ◽  
Growth Inhibitors

scholarly journals High-resolution genetic mapping of maize pan-genome sequence anchors

2015 ◽  
Vol 6 (1) ◽  
Author(s):  
Fei Lu ◽  
Maria C. Romay ◽  
Jeffrey C. Glaubitz ◽  
Peter J. Bradbury ◽  
Robert J. Elshire ◽  
...  
Keyword(s):  
High Resolution ◽  
Genetic Mapping ◽  
Genome Sequence ◽  
Pan Genome

scholarly journals High-Resolution Genetic Mapping Using the Mouse Diversity Outbred Population

Genetics ◽  
2012 ◽  
Vol 190 (2) ◽  
pp. 437-447 ◽  
Author(s):  
Karen L. Svenson ◽  
Daniel M. Gatti ◽  
William Valdar ◽  
Catherine E. Welsh ◽  
Riyan Cheng ◽  
...  
Keyword(s):  
High Resolution ◽  
Genetic Mapping ◽  
Outbred Population ◽  
Diversity Outbred

scholarly journals High-Resolution Genetic Mapping in the Diversity Outbred Mouse Population Identifies Apobec1 as a Candidate Gene for Atherosclerosis

2014 ◽  
Vol 4 (12) ◽  
pp. 2353-2363 ◽  
Author(s):  
Tangi L. Smallwood ◽  
Daniel M. Gatti ◽  
Pamela Quizon ◽  
George M. Weinstock ◽  
Kuo-Chen Jung ◽  
...  
Keyword(s):  
High Resolution ◽  
Genetic Mapping ◽  
Candidate Gene ◽  
Mouse Population ◽  
Diversity Outbred ◽  
Outbred Mouse

scholarly journals High-resolution genetic mapping of the hypodactyly (Hd) locus on mouse Chromosome 6

1996 ◽  
Vol 7 (1) ◽  
pp. 2-5 ◽  
Author(s):  
J. W. Innis ◽  
K. Kazen-Gillespie ◽  
L. C. Post ◽  
J. McGorman
Keyword(s):  
High Resolution ◽  
Genetic Mapping ◽  
Mouse Chromosome ◽  
Chromosome 6

scholarly journals A synthesis of mapping experiments reveals extensive genomic structural diversity in the Mimulus guttatus species complex

2018 ◽  
Author(s):  
Lex Flagel ◽  
Benjamin K. Blackman ◽  
Lila Fishman ◽  
Patrick J. Monnahan ◽  
Andrea Sweigart ◽  
...  
Keyword(s):  
Genetic Mapping ◽  
Species Complex ◽  
Large Scale ◽  
Structural Variation ◽  
Reference Genome ◽  
Genetic Research ◽  
Evolutionary Genetics ◽  
Flowering Plant ◽  
Mimulus Guttatus ◽  
Trait Mapping

ABSTRACTUnderstanding genomic structural variation such as inversions and translocations is a key challenge in evolutionary genetics. In this paper, we tackle this challenge by developing a novel statistical approach to comparative genetic mapping. The procedure couples a Hidden Markov Model with a Genetic Algorithm to detect large-scale structural variation using low-level sequencing data from multiple genetic mapping populations. We demonstrate the method using five distinct crosses within the flowering plant genus Mimulus. The synthesis of data from these experiments is first used to correct numerous errors (misplaced sequences) in the M. guttatus reference genome. Second, we confirm and/or detect eight large inversions polymorphic within the M. guttatus species complex. Finally, we show how this method can be applied in genomic scans to improve the accuracy and resolution of Quantitative Trait Locus (QTL) mapping.AUTHOR SUMMARYGenome sequences have proved to be a critical experimental resource for genetic research in many species. However, in some species there is considerable variation in genomic organization, making a single reference genome sequence inadequate. This variation can cause issues in interpreting genomic signals, such as those coming from trait mapping. We introduce a new statistical method and computational tools that use linkage information to reorganize a single reference genome to 1) repair genome assembly errors, and 2) identify variation between individuals or populations of the same species. Using this method we can create a new genome order that improves upon the reference genome. We apply this method to five crosses among plants in the Mimulus guttatus species complex. In this system we detect eight large chromosomal inversions and improve the resolution of a trait mapping study. This work highlights the utility of our method, and indicates how others studying diverse species might use them to improve their own research.

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