recombination rate
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2022 ◽  
Author(s):  
Ben Auxier ◽  
Frank Becker ◽  
Reindert Nijland ◽  
Alfons J.M. Debets ◽  
Joost van den Heuvel ◽  
...  

Evidence from both population genetics and a laboratory sexual cycle indicate that sex is common in the fungus Aspergillus fumigatus. However, the impact of sexual reproduction has remained unclear. Here, we show that meiosis in A. fumigatus involves the highest known recombination rate, producing ~29 crossovers per chromosome. This represents the highest known crossover rate for any Eukaryotic species. We validate this recombination rate by mapping resistance to acriflavine, a common genetic marker. We further show that this recombination rate can produce the commonly encountered TR34/L98H azole-resistant cyp51A haplotype in each sexual event, facilitating its rapid and global spread. Understanding the consequences of this unparalleled crossover rate will not only enrich our genetic understanding of this emergent human pathogen, but of meiosis in general.


Genetics ◽  
2022 ◽  
Author(s):  
Marinela Dukić ◽  
Kirsten Bomblies

Abstract The number and placement of meiotic crossover events during meiosis has important implications for the fidelity of chromosome segregation as well as patterns of inheritance. Despite the functional importance of recombination, recombination landscapes vary widely among and within species, and this can have a strong impact on evolutionary processes. A good knowledge of recombination landscapes is important for model systems in evolutionary and ecological genetics, since it can improve interpretation of genomic patterns of differentiation and genome evolution, and provides an important starting point for understanding the causes and consequences of recombination rate variation. Arabidopsis arenosa is a powerful evolutionary genetic model for studying the molecular basis of adaptation and recombination rate evolution. Here we generate genetic maps for two diploid A. arenosa individuals from distinct genetic lineages where we have prior knowledge that meiotic genes show evidence of selection. We complement the genetic maps with cytological approaches to map and quantify recombination rates, and test the idea that these populations might have distinct patterns of recombination. We explore how recombination differs at the level of populations, individuals, sexes and genomic regions. We show that the positioning of crossovers along a chromosome correlates with their number, presumably a consequence of crossover interference, and discuss how this effect can cause differences in recombination landscape among sexes or species. We identify several instances of female segregation distortion. We found that averaged genome-wide recombination rate is lower and sex differences subtler in A. arenosa than in A. thaliana.


2022 ◽  
Vol 12 ◽  
Author(s):  
Xinxiu Yu ◽  
Rajesh Joshi ◽  
Hans Magnus Gjøen ◽  
Zhenming Lv ◽  
Matthew Kent

Consensus and sex-specific genetic linkage maps for large yellow croaker (Larimichthys crocea) were constructed using samples from an F1 family produced by crossing a Daiqu female and a Mindong male. A total of 20,147 single nucleotide polymorphisms (SNPs) by restriction site associated DNA sequencing were assigned to 24 linkage groups (LGs). The total length of the consensus map was 1757.4 centimorgan (cM) with an average marker interval of 0.09 cM. The total length of female and male linkage map was 1533.1 cM and 1279.2 cM, respectively. The average female-to-male map length ratio was 1.2 ± 0.23. Collapsed markers in the genetic maps were re-ordered according to their relative positions in the ASM435267v1 genome assembly to produce integrated genetic linkage maps with 9885 SNPs distributed across the 24 LGs. The recombination pattern of most LGs showed sigmoidal patterns of recombination, with higher recombination in the middle and suppressed recombination at both ends, which corresponds with the presence of sub-telocentric and acrocentric chromosomes in the species. The average recombination rate in the integrated female and male maps was respectively 3.55 cM/Mb and 3.05 cM/Mb. In most LGs, higher recombination rates were found in the integrated female map, compared to the male map, except in LG12, LG16, LG21, LG22, and LG24. Recombination rate profiles within each LG differed between the male and the female, with distinct regions indicating potential recombination hotspots. Separate quantitative trait loci (QTL) and association analyses for growth related traits in 6 months fish were performed, however, no significant QTL was detected. The study indicates that there may be genetic differences between the two strains, which may have implications for the application of DNA-information in the further breeding schemes.


Author(s):  
Hanggara Sudrajat ◽  
Sri Hartuti ◽  
Sandhya Babel

Doping of Ta5+ into TiO2 replaces Ti4+ to decrease the recombination rate and elongate the electron lifetime due to the formation of shallow electron traps from Ti3+ defects. The elongated electron lifetime increases electron population and photocatalytic activity.


Author(s):  
Masaaki Akamatsu ◽  
Tatsuki Morita ◽  
Kazuki Kobayashi ◽  
Hiroki Iwase ◽  
Kenichi Sakai ◽  
...  

2021 ◽  
Author(s):  
Andrea Galli ◽  
Ulrik Fahnøe ◽  
Jens Bukh

Abstract Genetic recombination is an important evolutionary mechanism for RNA viruses and can facilitate escape from immune and drug pressure. Recombinant hepatitis C virus (HCV) variants have rarely been detected in patients, suggesting that HCV has intrinsic low recombination rate. Recombination of HCV has been demonstrated in vitro between non-functional genomes, but its frequency and relevance for viral evolution and life cycle has not been clarified. We developed a cell-based assay to detect and quantify recombination between fully viable HCV genomes, using the reconstitution of green fluorescent protein (GFP) as a surrogate marker for recombination. Here, two GFP-expressing HCV genomes carrying different inactivating GFP mutations can produce a virus carrying a functional GFP by recombining within the GFP region. Generated constructs allowed quantification of recombination rates between markers spaced 603 and 553 nucleotides apart by flow cytometry and next-generation sequencing (NGS). Viral constructs showed comparable spread kinetics and reached similar infectivity titers in Huh7.5 cells, allowing their use in co-transfections and co-infections. Single cycle co-transfection experiments, performed in CD81-deficient S29 cells, showed GFP expression in double-infected cells, demonstrating genome mixing and occurrence of recombination. Quantification of recombinant genomes by NGS revealed an average rate of 6.1%, corresponding to 49% of maximum detectable recombination (MDR). Experiments examining recombination during the full replication cycle of HCV, performed in Huh7.5 cells, demonstrated average recombination rates of 5.0 % (40.0% MDR) and 3.6% (28.8% MDR) for markers spaced by 603 and 553 nucleotides, respectively, supporting a linear relationship between marker distance and recombination rates. First passage infections using recombinant virus supernatant resulted in comparable recombination rates of 5.9% (47.2% MDR) and 3.5% (28.0% MDR), respectively, for markers spaced by 603 and 553 nucleotides. We developed a functional cell-based assay that, to our knowledge, allows for the first-time detailed quantification of recombination rates using fully viable HCV constructs. Our data indicate that HCV recombines at high frequency between highly similar genomes, and that the frequency of recombination increases with the distance between marker sites. These results have implication for our understanding of HCV evolution and emphasize the importance of recombination in the reassortment of mutations in the HCV genome.


2021 ◽  
Author(s):  
Tom R Booker ◽  
Bret A Payseur ◽  
Anna Tigano

Background selection (BGS), the effect that purifying selection exerts on sites linked to deleterious alleles, is expected to be ubiquitous across eukaryotic genomes. The effects of BGS reflect the interplay of the rates and fitness effects of deleterious mutations with recombination. A fundamental assumption of BGS models is that recombination rates are invariant over time. However, in some lineages recombination rates evolve rapidly, violating this central assumption. Here, we investigate how recombination rate evolution affects genetic variation under BGS. We show that recombination rate evolution modifies the effects of BGS in a manner similar to a localised change in the effective population size, potentially leading to an underestimation of the genome-wide effects of selection. Furthermore, we find evidence that recombination rate evolution in the ancestors of modern house mice may have impacted inferences of the genome-wide effects of selection in that species.


Nanomaterials ◽  
2021 ◽  
Vol 11 (12) ◽  
pp. 3310
Author(s):  
Yijie Xia ◽  
Shuaishuai Du ◽  
Pengju Huang ◽  
Luchao Wu ◽  
Siyu Yan ◽  
...  

The temperature-dependent photoluminescence (PL) properties of an anti-perovskite [MnBr4]BrCs3 sample in the temperature range of 78–500 K are studied in the present work. This material exhibits unique performance which is different from a typical perovskite. Experiments showed that from room temperature to 78 K, the luminous intensity increased as the temperature decreased. From room temperature to 500 K, the photoluminescence intensity gradually decreased with increasing temperature. Experiments with varying temperatures repeatedly showed that the emission wavelength was very stable. Based on the above-mentioned phenomenon of the changing photoluminescence under different temperatures, the mechanism is deduced from the temperature-dependent characteristics of excitons, and the experimental results are explained on the basis of the types of excitons with different energy levels and different recombination rates involved in the steady-state PL process. The results show that in the measured temperature range of 78–500 K, the steady-state PL of [MnBr4]BrCs3 had three excitons with different energy levels and recombination rates participating. The involved excitons with the highest energy level not only had a high radiative recombination rate, but a high non-radiative recombination rate as well. The excitons at the second-highest energy level had a similar radiative recombination rate to the lowest energy level excitons and a had high non-radiative recombination rate. These excitons made the photoluminescence gradually decrease with increasing temperature. This may be the reason for this material’s high photoluminescence efficiency and low electroluminescence efficiency.


BMC Chemistry ◽  
2021 ◽  
Vol 15 (1) ◽  
Author(s):  
Violet M. Nkwe ◽  
Damian C. Onwudiwe ◽  
Mayowa A. Azeez

Abstract Background A large volume of dye molecules finds its way into the environment, accumulates in water bodies, and makes the aquatic system unsafe to human health. Due to the complex nature of these dye materials, most of the conventional techniques are not effective for their removal. Semiconductor photocatalysis has emerged as a promising technique for  the destruction of organic pollutants under UV or visible light irradiation. Among the semiconductors, Bi2S3 is widely employed in photocatalysis due to its non-toxicity and chemical stability. However, one of its problems is the high recombination rate of the charge, and various methods have been employed to enhance the photo-reactivity. One of  these methods is the incorporation of transition elements. Results Herein, a facile solvothermal method was used to prepare Bi2S3 nanorods and needle- shaped Sn doped Bi2S3, using bismuth(III) tris(N-phenyldithiocarbamate) as a single-source precursor. The prepared nanomaterials were characterized, and used as efficient photocatalyst for the photo enhanced degradation of methylene blue (MB) dye under visible light irradiation. The nanomaterials exhibited very good photocatalytic activity towards the photo degradation of MB, showing a degradation rate of up to 83% and 94% within 150 min for the pristine and Sn doped Bi2S3,  respectively. Conclusion The enhancement in the photocatalytic activity of the Sn doped Bi2S3 was attributed to the suppression in the recombination rate of the electron‐hole pairs, due to the formation of new energy level below the CB, that was capable of altering the equilibrium concentration of the carrier. This confirmed that Sn doped Bi2S3 could be utilized as valuable cost-efficient catalysts for eliminating methyl blue from aqueous solutions and also possible candidates in environmental pollution treatment.


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