Exploiting the<i>ZIP4</i>homologue within the wheat<i>Ph1</i>locus has identified two lines exhibiting homoeologous crossover in wheat-wild relative hybrids

Rey, María‐Dolores; Martín, Azahara C.; Higgins, Janet; Swarbreck, David; Uauy, Cristóbal; Shaw, Peter; Moore, Graham

doi:10.1101/142596

Cited by 21 publications

(45 citation statements)

References 27 publications

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“…They indicate that reducing the efficiency of the main recombination (class I) pathway could be sufficient to bias the choice of recombination partners away from the homoeologues, thus promoting inter-homologue crossovers. This idea is in line with recent results from wheat, in which an extra copy of ZIP4, a gene involved in the class I crossover pathway, was recently shown to be instrumental in preventing inter-homoeologue crossovers in wheat 60 . The mode of action of this extra copy is not yet known but it is likely to modulate the class I pathway 21 .…”

Section: Discussionsupporting

confidence: 87%

Meiotic effects ofMSH4copy number variation support an adaptive role for post-polyploidy gene loss

Gonzalo

Lucas

et al. 2018

Preprint

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Many eukaryotes descend from polyploid ancestors that experienced massive duplicate gene loss. This genomic erosion is particularly strong for duplicated (meiotic) recombination genes that return to a single copy more rapidly than genome average following polyploidy. To better understand the evolutionary forces underlying duplicate loss, we analysed how varying copy numbers of MSH4, an essential meiotic recombination gene, influences crossover formation in allotetraploid Brassica napus. We show that faithful chromosome segregation and crossover frequencies between homologous chromosomes are unchanged with MSH4 duplicate loss; by contrast, crossovers between homoeologous chromosomes (which result in genomic rearrangements) decrease with reductions in MSH4 copy number. We also found that inter-homoeologue crossovers originate almost exclusively from the MSH4-dependent crossover pathway. Limiting the efficiency of this pathway by decreasing the copy number of key meiotic recombination genes could therefore contribute to adaptation to polyploidy, by promoting regular chromosome segregation and genomic stability. TextGene duplication and gene loss are two driving forces in evolution 1-3 . These two mechanisms are well illustrated by the evolution of the meiotic recombination machinery. At the outset, the emergence of meiosis required key evolutionary breakthroughs 4-6 that were all made possible through iterative gene duplications followed by acquisition of new functions. These include, among others, the formation of programmed DNA double-strand breaks by SPO11 proteins 7 , the promotion of double-strand break repair using homologous templates by DMC1, RAD51 and some other related proteins 8 or the resolution of recombination intermediates as crossovers by MSH and MLH proteins 9 . After this initial phase, genes involved in meiotic recombination (and DNA repair in general) have tended to return preferentially to single copy following subsequent duplications 10,11 , with some

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Section: Discussionsupporting

confidence: 87%

Meiotic effects ofMSH4copy number variation support an adaptive role for post-polyploidy gene loss

Gonzalo

Lucas

et al. 2018

Preprint

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“…The remaining 36,243 genes had homologs outside of bread wheat and appeared to be subgenome specific ( Table 3). Two of the genes in this category were granule bound starch synthase (GBSS) on chromosome 4A (1:0:0, a gene that is a key determinant of udon noodle quality) and ZIP4 within the pairing homeologous 1 (Ph1) locus on chromosome 5B [0:1:0, a locus critical for the diploid meiotic behavior of the wheat homeologous chromosomes (25)]. The phylogenomic analysis indicated that the GBSS on 4A is a divergent translocated homeolog originally located on chromosome 7B (fig.…”

Section: Assembly Characteristics Valuesmentioning

confidence: 99%

“…S54). Within the dehydrin gene family, implicated with drought tolerance in plants, 25 genes that formed welldefined clusters on chromosomes 6A, 6B, and 6D (figs. S53 and S55) showed early increased expression under severe drought stress.…”

Section: Research | Research Articlementioning

confidence: 99%

Shifting the limits in wheat research and breeding using a fully annotated reference genome

Appels

Eversole

Stein

et al. 2018

Science

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1,218

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An annotated reference sequence representing the hexaploid bread wheat genome in 21 pseudomolecules has been analyzed to identify the distribution and genomic context of coding and noncoding elements across the A, B, and D subgenomes. With an estimated coverage of 94% of the genome and containing 107,891 high-confidence gene models, this assembly enabled the discovery of tissue- and developmental stage–related coexpression networks by providing a transcriptome atlas representing major stages of wheat development. Dynamics of complex gene families involved in environmental adaptation and end-use quality were revealed at subgenome resolution and contextualized to known agronomic single-gene or quantitative trait loci. This community resource establishes the foundation for accelerating wheat research and application through improved understanding of wheat biology and genomics-assisted breeding.

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“…The Ph1 locus, which was first described 60 years ago (Riley and Chapman 1958 ; Sears and Okamoto 1958 ), was initially associated with a cluster of cyclin-dependent-like kinases (CDKs) on chromosome 5B interrupted by a block of heterochromatin (Greer et al 2012 ; Griffiths et al 2006 ). Rey et al ( 2017 ) recently revealed that the Ph1 locus also contains an extra copy of the ZMM gene ZIP4 (Tazip4 - B2) and showed that TaZIP4-B2 is responsible, at least partially, for CO suppression between homoeologous chromosomes.…”

Section: Control Of Co Formation In Plantsmentioning

confidence: 99%

Manipulation of crossover frequency and distribution for plant breeding

Blary

Jenczewski

2018

Theor Appl Genet

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The crossovers (COs) that occur during meiotic recombination lead to genetic diversity upon which natural and artificial selection can act. The potential of tinkering with the mechanisms of meiotic recombination to increase the amount of genetic diversity accessible for breeders has been under the research spotlight for years. A wide variety of approaches have been proposed to increase CO frequency, alter CO distribution and induce COs between non-homologous chromosomal regions. For most of these approaches, translational biology will be crucial for demonstrating how these strategies can be of practical use in plant breeding. In this review, we describe how tinkering with meiotic recombination could benefit plant breeding and give concrete examples of how these strategies could be implemented into breeding programs.

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Exploiting theZIP4homologue within the wheatPh1locus has identified two lines exhibiting homoeologous crossover in wheat-wild relative hybrids

Cited by 21 publications

References 27 publications

Meiotic effects ofMSH4copy number variation support an adaptive role for post-polyploidy gene loss

Meiotic effects ofMSH4copy number variation support an adaptive role for post-polyploidy gene loss

Shifting the limits in wheat research and breeding using a fully annotated reference genome

Manipulation of crossover frequency and distribution for plant breeding

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