Eva B. Giagia-Athanasopoulou

R2d2 Drives Selfish Sweeps in the House Mouse

A selective sweep is the result of strong positive selection driving newly occurring or standing genetic variants to fixation, and can dramatically alter the pattern and distribution of allelic diversity in a population. Population-level sequencing data have enabled discoveries of selective sweeps associated with genes involved in recent adaptations in many species. In contrast, much debate but little evidence addresses whether “selfish” genes are capable of fixation—thereby leaving signatures identical to classical selective sweeps—despite being neutral or deleterious to organismal fitness. We previously described R2d2, a large copy-number variant that causes nonrandom segregation of mouse Chromosome 2 in females due to meiotic drive. Here we show population-genetic data consistent with a selfish sweep driven by alleles of R2d2 with high copy number (R2d2HC) in natural populations. We replicate this finding in multiple closed breeding populations from six outbred backgrounds segregating for R2d2 alleles. We find that R2d2HC rapidly increases in frequency, and in most cases becomes fixed in significantly fewer generations than can be explained by genetic drift. R2d2HC is also associated with significantly reduced litter sizes in heterozygous mothers, making it a true selfish allele. Our data provide direct evidence of populations actively undergoing selfish sweeps, and demonstrate that meiotic drive can rapidly alter the genomic landscape in favor of mutations with neutral or even negative effects on overall Darwinian fitness. Further study will reveal the incidence of selfish sweeps, and will elucidate the relative contributions of selfish genes, adaptation and genetic drift to evolution.

Geographical distribution and interpopulation variation in the karyotypes of Microtus (Terricola) thomasi (Rodentia, Arvicolidae) in Greece

SUMMARYThe karyological analysis of fifty-five voles collected in different localities of Greece showed that they belong to the following cytotypes of Microtus (Terricola) thomasi: «thomasi» 2n = 44; FN = 44, «atticus» 2n = 44; FN = 46, «subalpine» 2n = 42; FN = 42 and «Rb-subalpine» 2n = 40; FN = 42. A comparative study of the G-banding patterns among them showed that the first two, differing in a pericentric inversion, both represent the type species M. (T.) thomasi. Their distribution is intermingled and extends from central Greece to Peloponissos. The «subalpine» cytotypes distributed in mountainous central Greece, in Mt. South Pindos and in lowland of Ipiros, differ by a Robertsonian centric fusion. They display moreover a tandem fusion, a pericentric inversion and addition of heterochromatin which differentiate them to a greater extend from the type species and may consequently be consider to belong to another taxon of «thomasi» complex. The relatioships among these cytotypes is also descussed.

A new pericentromeric repeated DNA sequence in Microtus thomasi

Several karyotypic forms have been previously described in populations of the vole species Microtus thomasi from Greece. In particular, the karyomorphs Microtus thomasi ‘thomasi’ and ‘atticus’ differ in X chromosome morphology, being acrocentric and subtelocentric, respectively. Furthermore, remarkable heterochromatin content variability has been described in sex chromosomes of both karyomorphs. Genomic DNA digestion with AluI allowed us to clone an 884 bp long repeated DNA sequence (Mth-Alu900) from the karyomorph M. thomasi ‘atticus’. This repeated DNA is AT rich and seems to be organized mainly as a dimer of the 884-bp unit, which presents three simple repeats (CAAAT, CAGAT and CAGAC) that constitute 80% of the total unit length. This repeated DNA is exclusive to M. thomasi, since it is absent from the genome of other studied Arvicolinae species. The chromosomal location of Mth-Alu900 was analyzed on M. thomasi ‘thomasi’ and M. thomasi ‘atticus’ karyomorphs, with different sex chromosome constitution. It was mainly located on the pericentromeric heterochromatin of most autosomes and X chromosomes on both karyomorphs. Results are also discussed in relation to karyotypic and sex chromosome variations in M. thomasi. To our knowledge, Mth-Alu900 constitutes a new – the third discovered so far – pericentromeric repeated DNA sequence described in Microtus species.

A chromosomal study on Greek populations of the genusApodemus (Rodentia, Murinae) reveals new data on B chromosome distribution

During this study, 94 specimens (51 males, 43 females) of the wood mouseApodemus sylvaticus (Linnaeus, 1758), the yellow-necked mouseA. flavicollis (Melchior, 1834) and the western broad-toothed mouseA. epimelas (Nehring, 1902) from 20 localities of Greece were karyologically examined. The first two species were found to be widely distributed and their otherwise very similar karyotype (2n=48, FN=48) could be clearly distinguished, based on C-banding pattern. The third species appeared to have a more limited geographical distribution and its karyotype was distinguished from that of the previous two species, since it contained two pairs of small metacentric autosomes (2n=48, FN=52). The chromosomal study further revealed that nine individuals ofA. flavicollis possessed supernumerary B chromosomes (2n=49–50, FN=49–50). Meiotic chromosome preparations revealed that in contrast to sex chromosomes and autosomes, B chromosomes do not participate in bivalent formation. On the other hand, no supernumerary chromosomes were found in the studiedA. sylvaticus andA. epimelas material.

Comparative study of the phylogenetic structure in six Apodemus species (Mammalia, Rodentia) inferred from ISSR-PCR data

The utility of the Inter Simple Sequence Repeat-Polymerase Chain Reaction (ISSR-PCR) was explored in order to determine genetic variation in six species of the genus Apodemus (A. flavicollis, A. sylvaticus, A. uralensis, A. agrarius, A. mystacinus and A. epimelas) at the individual level, population level, in separate geographic samples and in the species as a whole. Six optimized primers produced highly reproducible and polymorphic DNA markers with 98.3% polymorphic bands on a total sample of 91 individuals from 32 localities in Europe and Asia. Moreover, each primer allowed for an exact diagnosis of each of the six Apodemus species and thus provides a simple and reliable tool for the hitherto problematic discrimination of species from the subgenus Sylvaemus. Genetic distances between species ranged from 0.079, among the closely related A. flavicollis and A. sylvaticus, to 0.203 between A. mystacinus and A. agrarius. A. flavicollis, A. uralensis and A. sylvaticus display a strong population substructure. The range of genetic distances among geographic samples within last two species reaches the values obtained for closely related species. ISSR markers proved to be a simple and reliable tool for species diagnosis, as well as for estimating genetic diversity below the species level and for closely related species, but they showed questionable reliability for larger genetic distances.

Molecular and Physical Characterization of the Complex Pericentromeric Heterochromatin of the Vole Species Microtus thomasi

A new repeated DNA from Microtus thomasi, Mth-Alu2.2, was cloned and characterized and is presented here for the first time. Digestion of genomic DNA from M. thomasi with AluI restriction enzyme revealed a 2.2-kb repetitive DNA sequence with a high AT content (69%). This sequence consists of a tandemly repeated nonanucleotide of the consensus sequence CACAATGTA, which constitutes approximately 93-95% of the total unit length. The location of the Mth-Alu2.2 sequence in the karyotype was determined by FISH, demonstrating strong hybridization signals in the pericentromeric regions of all chromosomes and in the heterochromatin blocks of several X chromosome variants. In addition, the distribution of the 4 pericentromeric repeat sequences Msat-160, Mth-Alu900, Mth-Alu2.2, and interstitial telomeric repeats was analyzed by in situ hybridization in M. thomasi, in order to shed light on the complex composition of the chromosomal pericentromeric regions in this species. The order and organization of these sequences in the pericentromeric regions are conserved, with slight variations in both the degree of overlapping and the amount of each repeated DNA in the chromosomes. Specifically, Mth-Alu2.2 is localized in the terminal regions of the chromosomes, with Msat-160 occupying the immediately inner region, partially intermixed with Mth-Alu2.2. The sequence Mth-Alu900 is found in internal positions below Msat-160, and the interstitial telomeric repeats are located close to the long-arm euchromatin of the chromosomes.

A selfish genetic element drives recurring selective sweeps in the house mouse

A selective sweep is the result of strong positive selection driving newly occurring or standing genetic variants to fixation, and can dramatically alter the pattern and distribution of allelic diversity in a population. Population-level sequencing data have enabled discoveries of selective sweeps associated with genes involved in recent adaptations in many species. In contrast, much debate but little empirical evidence addresses whether “selfish” genes are capable of fixation  thereby leaving signatures identical to classical selective sweeps  despite being neutral or deleterious to organismal fitness. We previously described R2d2, a large copy-number variant that causes non-random segregation of mouse Chromosome 2 in females due to meiotic drive. Here we show population-genetic data consistent with a selfish sweep driven by alleles of R2d2 with high copy number (R2d2HC) in natural populations. We replicate this finding in multiple closed breeding populations from six outbred backgrounds segregating for R2d2 alleles. We find that R2d2HC rapidly increases in frequency, and in most cases becomes fixed in significantly fewer generations than can be explained by genetic drift. R2d2HC is also associated with significantly reduced litter sizes in heterozygous mothers, making it a true selfish allele. Our data provide direct evidence of populations actively undergoing selfish sweeps, and demonstrate that meiotic drive can rapidly alter the genomic landscape in favor of mutations with neutral or even negative effects on overall Darwinian fitness. Further study will reveal the incidence of selfish sweeps, and will elucidate the relative contributions of selfish genes, adaptation and genetic drift to evolution.A selective sweep is the result of strong positive selection rapidly driving newly occurring or standing genetic variants to fixation, and can dramatically alter the pattern and distribution of allelic diversity in a population or species. Population-level sequencing data have enabled discoveries of selective sweeps associated with genes involved in recent adaptations in many species. In contrast, much debate but little empirical evidence addresses whether “selfish” genes are capable of fixation, thereby leaving signatures identical to classical selective sweeps – despite being neutral or deleterious to organismal fitness. Here we show that R2d2, a large copy-number variant that causes non-random segregation of mouse Chromosome 2 during female meiosis due to meiotic drive, has driven recurrent selective sweeps while having no discernable effect on fitness. We tested multiple closed breeding populations from six outbred backgrounds and found that alleles of R2d2 with high copy number (R2d2HC) rapidly increase in frequency, and in most cases become fixed in significantly fewer generations than can be explained by genetic drift. A survey of 13 natural mouse populations in Europe and the United States revealed that R2d2HC alleles are circulating at intermediate frequencies in the wild; moreover, patterns of local haplotype diversity are consistent with recent positive selection. Our results provide direct evidence of populations actively undergoing selective sweeps driven by a selfish genetic element, and demonstrate that meiotic drive can rapidly alter the genomic landscape in favor of mutations with neutral or even negative effect on overall Darwinian fitness. Further study and updated models are required to clarify the relative contributions of selfish genes, adaptation and genetic drift to evolution.