Meiotic crossover interference: Methods of analysis and mechanisms of action

Chuang, Yu-Chien; Smith, Gerald R.

doi:10.1016/bs.ctdb.2022.04.006

Cited by 3 publications

(9 citation statements)

References 112 publications

Supporting

Mentioning

Contrasting

Order By: Relevance

“…5c ), agreeing with previous studies 32 . An explanation for this could be crossovers near centromeres might interrupt the attachment of the spindles to the centromeres or disrupt the pulling of the centromeres to opposite poles of a cell during cell division 33 . Crossover location density plots were described for each chromosome (Supplementary Fig.…”

Section: Resultsmentioning

confidence: 99%

Mapping crossover events of mouse meiotic recombination by restriction fragment ligation-based Refresh-seq

Wang,

Chen,

Gao

et al. 2024

Cell Discov

View full text Add to dashboard Cite

Single-cell whole-genome sequencing methods have undergone great improvements over the past decade. However, allele dropout, which means the inability to detect both alleles simultaneously in an individual diploid cell, largely restricts the application of these methods particularly for medical applications. Here, we develop a new single-cell whole-genome sequencing method based on third-generation sequencing (TGS) platform named Refresh-seq (restriction fragment ligation-based genome amplification and TGS). It is based on restriction endonuclease cutting and ligation strategy in which two alleles in an individual cell can be cut into equal fragments and tend to be amplified simultaneously. As a new single-cell long-read genome sequencing method, Refresh-seq features much lower allele dropout rate compared with SMOOTH-seq. Furthermore, we apply Refresh-seq to 688 sperm cells and 272 female haploid cells (secondary polar bodies and parthenogenetic oocytes) from F1 hybrid mice. We acquire high-resolution genetic map of mouse meiosis recombination at low sequencing depth and reveal the sexual dimorphism in meiotic crossovers. We also phase the structure variations (deletions and insertions) in sperm cells and female haploid cells with high precision. Refresh-seq shows great performance in screening aneuploid sperm cells and oocytes due to the low allele dropout rate and has great potential for medical applications such as preimplantation genetic diagnosis.

show abstract

Section: Resultsmentioning

confidence: 99%

Mapping crossover events of mouse meiotic recombination by restriction fragment ligation-based Refresh-seq

Wang,

Chen,

Gao

et al. 2024

Cell Discov

View full text Add to dashboard Cite

show abstract

Section: Coefficient Of Coincidencementioning

confidence: 99%

“…The coefficient of coincidence (CoC) is traditionally defined by chopping up the whole length of the chromosome into intervals: For each pair of intervals A and B , the CoC is defined as the ratio of the observed frequency r AB of double COs to the expected frequency in absence of interference [2, 3, 39]. Assuming independence of occurrence in the absence of interference, the latter is given by r A · r B , where r A is the frequency of the occurrence of individual COs in interval A , implying [14, 38] This quantity is 1 if CO positions are independent of each other (e.g., in absence of interference), whereas values smaller than 1 indicate positive interference. To summarize the data for all pairs of intervals, the CoC values are typically plotted against the distance d of the corresponding intervals.…”

Section: Quantification Based On a Gamma Distributionmentioning

confidence: 99%

“…Alternatively, genetic techniques can detect transmission events from parental DNA to offspring to identify COs [7,12,14,[23][24][25][26][27]; positions along the chromatids are quantified in units of megabases (Mb) in DNA space. However, only half of the designated COs will become a CO on a selected gamete [7,14]. CO maturation inefficiencies can further contribute to discrepancies between the cytologically and genetically obtained data.…”

Section: Introductionmentioning

confidence: 99%

“…However, ν is sensitive to random sub-sampling [6, 28, 37, 38], it only uses data from chromosomes with at least two COs [42], and it is also influenced by other aspects than interference, in particular the typically heterogeneous distribution of CO positions [37]. An alternative quantification is the coefficient of coincidence (CoC), which measures the ratio of observed frequency of CO pairs to the expected frequency in absence of interference as a function of the CO distance [2, 3, 14, 38, 39]; see Fig. 1B.…”

Section: Introductionmentioning

confidence: 99%

See 2 more Smart Citations

Interference Length reveals regularity of crossover placement across species

Ernst,

Mercier,

Zwicker

2024

Preprint

View full text Add to dashboard Cite

Crossover interference is a phenomenon that affects the number and positioning of crossovers in meiosis and thus affects genetic diversity and chromosome segregation. Yet, the underlying mechanism is not fully understood, partly because quantification is difficult. To overcome this challenge, we introduce the interference length that quantifies changes in crossover patterning due to interference. We show that it faithfully captures known aspects of crossover interference and provides superior statistical power over previous methods. We apply our analysis to empirical data and unveil a similar behavior of the interference length across species, which hints at a common mechanism. A recently proposed coarsening model generally captures these aspects, providing a unified view of crossover interference. Consequently, the interference length facilitates model refinements and general comparisons between alternative models of crossover interference.

show abstract

Crossover interference mechanism: New lessons from plants

Rafiei

Ronceret

2023

Front. Cell Dev. Biol.

View full text Add to dashboard Cite

Plants are the source of our understanding of several fundamental biological principles. It is well known that Gregor Mendel discovered the laws of Genetics in peas and that maize was used for the discovery of transposons by Barbara McClintock. Plant models are still useful for the understanding of general key biological concepts. In this article, we will focus on discussing the recent plant studies that have shed new light on the mysterious mechanisms of meiotic crossover (CO) interference, heterochiasmy, obligatory CO, and CO homeostasis. Obligatory CO is necessary for the equilibrated segregation of homologous chromosomes during meiosis. The tight control of the different male and female CO rates (heterochiasmy) enables both the maximization and minimization of genome shuffling. An integrative model can now predict these observed aspects of CO patterning in plants. The mechanism proposed considers the Synaptonemal Complex as a canalizing structure that allows the diffusion of a class I CO limiting factor linearly on synapsed bivalents. The coarsening of this limiting factor along the SC explains the interfering spacing between COs. The model explains the observed coordinated processes between synapsis, CO interference, CO insurance, and CO homeostasis. It also easily explains heterochiasmy just considering the different male and female SC lengths. This mechanism is expected to be conserved in other species.

show abstract

Meiotic crossover interference: Methods of analysis and mechanisms of action

Cited by 3 publications

References 112 publications

Mapping crossover events of mouse meiotic recombination by restriction fragment ligation-based Refresh-seq

Mapping crossover events of mouse meiotic recombination by restriction fragment ligation-based Refresh-seq

Interference Length reveals regularity of crossover placement across species

Crossover interference mechanism: New lessons from plants

Contact Info

Product

Resources

About