Hybridogenesis in the Water Frogs from Western Russian Territory: Intrapopulation Variation in Genome Elimination

Hybridogenesis in an interspecific hybrid frog is a coupling mechanism in the gametogenic cell line that eliminates the genome of one parental species with endoduplication of the remaining genome of the other parental species. It has been intensively investigated in the edible frog Pelophylax kl. esculentus (RL), a natural hybrid between the marsh frog P. ridibundus (RR) and the pool frog P. lessonae (LL). However, the genetic mechanisms involved remain unclear. Here, we investigated the water frogs in the western Russian territory. In three of the four populations, we genetically identified 16 RL frogs living sympatrically with the parental LL species, or with both parental species. In addition, two populations contained genome introgression with another species, P. bedriagae (BB) (a close relative of RR). In the gonads of 13 RL frogs, the L genome was eliminated, producing gametes of R (or R combined with the B genome). In sharp contrast, one RL male eliminated the L or R genome, producing both R and L sperm. We detected a variation in genome elimination within a population. Based on the genetic backgrounds of RL frogs, we hypothesize that the introgression of the B genome resulted in the change in choosing a genome to be eliminated.

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Molecular evidence on the origin of wheat chromosomes 4A and 4B

Genome ◽

10.1139/g90-006 ◽

1990 ◽

Vol 33 (1) ◽

pp. 30-39 ◽

Cited By ~ 16

Author(s):

J. Dvořák ◽

P. Resta ◽

R. S. Kota

Keyword(s):

In Situ Hybridization ◽

Repeated Sequence ◽

Triticum Aestivum L ◽

Close Relative ◽

Molecular Evidence ◽

Substitution Lines ◽

Genome Chromosome ◽

B Genome ◽

A Genome

The genome allocation of the Triticum aestivum L. chromosomes denoted 4A and 4B was based on an erroneous inference. Since neither chromosome pairs with the chromosomes of putative ancestors of wheat, molecular tools were employed to clarify the origin of the two chromosomes. Disomic substitutions for T. aestivum chromosomes 4A or 4B by chromosomes 4 from T. speltoides (Tausch) Gren., a putative ancestor of the wheat B genome, T. longissimum (Schweinf. et Muschl.) Bowden (a close relative of T. speltoides), or T. monococcum L. ssp. aegilopoides (Link) Thell., a close relative of the ancestor of the wheat A genome, were produced. The ability of the substituted chromosome to compensate in the disomic substitution lines, the C-banding patterns of the chromosomes, electrophoretic alleles at the Adh-1 and Lpx-1 loci, and in situ hybridization with an interspersed repeated sequence all were consistent in showing that the chromosome previously denoted as 4A belongs to the B genome and the chromosome previously denoted as 4B is a rearranged chromosome of the A genome. Chromosome 4A is consequently reallocated to the B genome and chromosome 4B to the A genome in T. turgidum L. em. Morris et Sears and T. aestivum. To reflect the fact that the chromosome previously denoted as 4B has only a homoeologous relationship to chromosome 4A of T. urartu (the ancestor of the A genome in polyploid wheats), the chromosome is designated 4Aa.Key words: repeated nucleotide sequence, alcohol dehydrogenase, lipoxygenase, in situ hybridization, chromosome evolution.

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Genetic, lifestyle, and health-related characteristics of adults without celiac disease who follow a gluten-free diet: a population-based study of 124,447 participants

American Journal of Clinical Nutrition ◽

10.1093/ajcn/nqaa291 ◽

2020 ◽

Author(s):

Thomas J Littlejohns ◽

Amanda Y Chong ◽

Naomi E Allen ◽

Matthew Arnold ◽

Kathryn E Bradbury ◽

...

Keyword(s):

Celiac Disease ◽

Genome Wide Association Study ◽

Population Based ◽

Gluten Free Diet ◽

Hospital Inpatient ◽

Gluten Free ◽

A Genome ◽

Wide Range ◽

Health Related ◽

Reported Health

ABSTRACT Background The number of gluten-free diet followers without celiac disease (CD) is increasing. However, little is known about the characteristics of these individuals. Objectives We address this issue by investigating a wide range of genetic and phenotypic characteristics in association with following a gluten-free diet. Methods The cross-sectional association between lifestyle and health-related characteristics and following a gluten-free diet was investigated in 124,447 women and men aged 40–69 y from the population-based UK Biobank study. A genome-wide association study (GWAS) of following a gluten-free diet was performed. Results A total of 1776 (1.4%) participants reported following a gluten-free diet. Gluten-free diet followers were more likely to be women, nonwhite, highly educated, living in more socioeconomically deprived areas, former smokers, have lost weight in the past year, have poorer self-reported health, and have made dietary changes as a result of illness. Conversely, these individuals were less likely to consume alcohol daily, be overweight or obese, have hypertension, or use cholesterol-lowering medication. Participants with hospital inpatient diagnosed blood and immune mechanism disorders (OR: 1.62; 95% CI: 1.18, 2.21) and non-CD digestive system diseases (OR: 1.58; 95% CI: 1.42, 1.77) were more likely to follow a gluten-free diet. The GWAS demonstrated that no genetic variants were associated with being a gluten-free diet follower. Conclusions Gluten-free diet followers have a better cardiovascular risk profile than non-gluten-free diet followers but poorer self-reported health and a higher prevalence of blood and immune disorders and digestive conditions. Reasons for following a gluten-free diet warrant further investigation.

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A Microsatellite Map of Wheat

Genetics ◽

10.1093/genetics/149.4.2007 ◽

1998 ◽

Vol 149 (4) ◽

pp. 2007-2023 ◽

Cited By ~ 8

Author(s):

Marion S Röder ◽

Victor Korzun ◽

Katja Wendehake ◽

Jens Plaschke ◽

Marie-Hélène Tixier ◽

...

Keyword(s):

Bread Wheat ◽

Reference Population ◽

Triticum Aestivum L ◽

Wheat Genome ◽

D Genome ◽

B Genome ◽

Microsatellite Map ◽

A Genome ◽

Polymorphic Microsatellite ◽

Primer Sets

Abstract Hexaploid bread wheat (Triticum aestivum L. em. Thell) is one of the world's most important crop plants and displays a very low level of intraspecific polymorphism. We report the development of highly polymorphic microsatellite markers using procedures optimized for the large wheat genome. The isolation of microsatellite-containing clones from hypomethylated regions of the wheat genome increased the proportion of useful markers almost twofold. The majority (80%) of primer sets developed are genome-specific and detect only a single locus in one of the three genomes of bread wheat (A, B, or D). Only 20% of the markers detect more than one locus. A total of 279 loci amplified by 230 primer sets were placed onto a genetic framework map composed of RFLPs previously mapped in the reference population of the International Triticeae Mapping Initiative (ITMI) Opata 85 × W7984. Sixty-five microsatellites were mapped at a LOD >2.5, and 214 microsatellites were assigned to the most likely intervals. Ninety-three loci were mapped to the A genome, 115 to the B genome, and 71 to the D genome. The markers are randomly distributed along the linkage map, with clustering in several centromeric regions.

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Three founding ancestral genomes involved in the origin of sugarcane

Annals of Botany ◽

10.1093/aob/mcab008 ◽

2021 ◽

Author(s):

Nicolas Pompidor ◽

Carine Charron ◽

Catherine Hervouet ◽

Stéphanie Bocs ◽

Gaëtan Droc ◽

...

Keyword(s):

Evolutionary Model ◽

Saccharum Officinarum ◽

Modern Cultivar ◽

Ploidy Levels ◽

Saccharum Spp ◽

Bac Clones ◽

B Genome ◽

A Genome ◽

Genomic Regions ◽

Complex Genome

Abstract Background and Aims Modern sugarcane cultivars (Saccharum spp.) are high polyploids, aneuploids (2n = ~12x = ~120) derived from interspecific hybridizations between the domesticated sweet species Saccharum officinarum and the wild species S. spontaneum. Methods To analyse the architecture and origin of such a complex genome, we analysed the sequences of all 12 hom(oe)ologous haplotypes (BAC clones) from two distinct genomic regions of a typical modern cultivar, as well as the corresponding sequence in Miscanthus sinense and Sorghum bicolor, and monitored their distribution among representatives of the Saccharum genus. Key Results The diversity observed among haplotypes suggested the existence of three founding genomes (A, B, C) in modern cultivars, which diverged between 0.8 and 1.3 Mya. Two genomes (A, B) were contributed by S. officinarum; these were also found in its wild presumed ancestor S. robustum, and one genome (C) was contributed by S. spontaneum. These results suggest that S. officinarum and S. robustum are derived from interspecific hybridization between two unknown ancestors (A and B genomes). The A genome contributed most haplotypes (nine or ten) while the B and C genomes contributed one or two haplotypes in the regions analysed of this typical modern cultivar. Interspecific hybridizations likely involved accessions or gametes with distinct ploidy levels and/or were followed by a series of backcrosses with the A genome. The three founding genomes were found in all S. barberi, S. sinense and modern cultivars analysed. None of the analysed accessions contained only the A genome or the B genome, suggesting that representatives of these founding genomes remain to be discovered. Conclusions This evolutionary model, which combines interspecificity and high polyploidy, can explain the variable chromosome pairing affinity observed in Saccharum. It represents a major revision of the understanding of Saccharum diversity.

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Putative diploid ancestors of 80-chromosome Glycine tabacina

Genome ◽

10.1139/g92-023 ◽

1992 ◽

Vol 35 (1) ◽

pp. 140-146 ◽

Cited By ~ 12

Author(s):

R. J. Singh ◽

K. P. Kollipara ◽

F. Ahmad ◽

T. Hymowitz

Keyword(s):

Adventitious Roots ◽

Chromosome Doubling ◽

Colchicine Treatment ◽

Meiotic Pairing ◽

B Genome ◽

Specific Hybridization ◽

A Genome ◽

Genome Homology ◽

Glycine Tabacina ◽

Natural Mutation

The objective of this study was to discover the diploid progenitors of 80-chromosome Glycine tabacina with adventitious roots (WAR) and no adventitious roots (NAR). Three synthetic amphiploids were obtained by somatic chromosome doubling. These were (i) (G. latifolia, 2n = 40, genome B1B1,) × (G. microphylla, 2n = 40, genome BB) = F1(2n = 40, genome BB1) – 0.1% colchicine treatment (CT) – 2n = 80, genome BBB1B1; (ii) (G. canescens, 2n = 40, genome AA) × G. microphylla, 2n = 40, genome BB) = F1 (2n = 40, genome AB) – (CT) – 2n = 80, genome AABB; (iii) (G. latifolia, 2n = 40, B1B1) × G. canescens, 2n = 40, AA) = F1 (2n = 40, genome AB1) – (CT) – 2n = 80, genome AAB1B1. The segmental allotetraploid BBB1B1 was morphologically similar to the 80-chromosome G. tabacina (WAR), but meiotic pairing data in F1 hybrids did not support the complete genomic affinity. Despite normal diploid-like meiosis in allotetraploids AABB and AAB1B1, AABB was completely fertile, while pod set in AAB1B1 was very sparse. Morphologically, allotetraploid AABB was indistinguishable from the 80-chromosome G. tabacina (NAR) but in their F1 hybrids, the range of univalents at metaphase I was wide (4–44). The allotetraploid AAB1B1 did not morphologically resemble the 80-chromosome G. tabacina (NAR). However, the F1 hybrid of AABB × AAB1B1 showed normal meiosis with an average chromosome association (range) of 1.7 I (0–4) + 39.2 II (38–40). Based on this information, we cannot correctly deduce the diploid progenitor species of the 80-chromosome G. tabacina (NAR). The lack of exact genome homology may be attributed to the geographical isolation, natural mutation, and growing environmental conditions since the inception of 80-chromosome G. tabacina. Thus, it is logical to suggest that the 80-chromosome G. tabacina (NAR) is a complex, probably synthesized from A genome (G. canescens, G. clandestina, G. argyrea, G. tomentella D4 isozyme group) and B genome (G. latifolia, G. microphylla, G. tabacina) species, and the 80-chromosome G. tabacina (WAR) complex was evolved through segmental allopolyploidy from the B genome species.Key words: Glycine spp., allopolyploidy, colchicine, genome, intra- and inter-specific hybridization, polyploid complex.

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Endoparasitic helminths of water frog complex in Poland: do differences exist between the parental species Pelophylax ridibundus and Pelophylax lessonae, and their natural hybrid Pelophylax esculentus?

Helminthologia ◽

10.2478/s11687-011-0020-8 ◽

2011 ◽

Vol 48 (2) ◽

pp. 108-115 ◽

Cited By ~ 4

Author(s):

M. Popiołek ◽

B. Rozenblut-Kościsty ◽

M. Kot ◽

W. Nosal ◽

M. Ogielska

Keyword(s):

20Th Century ◽

Parental Species ◽

Helminth Species ◽

Natural Hybrid ◽

Intensity Of Infection ◽

Water Frog ◽

Pelophylax Ridibundus ◽

Water Frogs ◽

Pelophylax Esculentus ◽

Cosmocerca Ornata

AbstractParasitic fauna of water frogs was mainly studied in the second half of the 20th century. However, these studies were done without differentiation into species and hybrids and pooled the 3 taxa as “water frogs” or “green frogs”. The aim of this study was to make an inventory of helminth species as well as their prevalence and intensity of infection in the two parental species (Pelophylax ridibundus and P. lessonae) and the hybrid (P. esculentus) of water frogs from 3 big populations composed of hundreds or thousands of individuals inhabited natural and seminatural landscapes in Poland. Eight helminth species were found: Polystoma integerrimum, Diplodiscus subclavatus, Opisthoglyphe ranae, Gorgodera cygnoides, Haematoloechus variegatus, Oswaldocruzia filiformis, Cosmocerca ornata and Acanthocephalus ranae. The results were compared with data from other, polish and European studies. Additionally we compared the level of infection among water frog taxa.

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Isoenzymes and polyploidy I. Qualitative and quantitative isoenzyme studies in the Triticinae

Genetics Research ◽

10.1017/s0016672300012416 ◽

1971 ◽

Vol 18 (1) ◽

pp. 57-69 ◽

Cited By ~ 30

Author(s):

R. Mitra ◽

C. R. Bhatia

Keyword(s):

Enzyme Activity ◽

Parental Species ◽

Gene Dosage ◽

Species Variation ◽

Polyploid Species ◽

Qualitative And Quantitative ◽

B Genome ◽

Genome Donor ◽

Variant Enzyme ◽

Seed Extracts

SUMMARYIsoenzymes of alcohol (ADH), malate (MDH), glutamate (GDH) and isocitrate (IDH) dehydrogenases, and a fast migrating esterase (EST-l) were separated by disk electrophoresis from dry seed extracts of diploid, tetraploid, hexaploid and octaploid species or amphiploids belonging to the subtribe Triticinae. Only ADH and EST-l isoenzymes showed inter-species variation; the other dehydrogenases, which show stringent substrate specificities (‘critical’ enzymes), revealed the same pattern in all diploid and polyploid species. The qualitative zymogram studies showed that (1) the number of variant enzyme bands increased with the level of ploidy, (2) the amphiploid isoenzyme pattern was additive of the parental species, (3) enhancement in the number of bands was due to the presence of not only parental bands, but also hybrid bands formed by association between heteromonomers. Quantitative data were obtained by densitometry of the enzyme bands as well as spectrophotometric measurements of enzyme activity in crude extracts. Increase in the level of enzyme activity was observed with ploidy level. In spite of the evidence that all duplicate/triplicate genes are expressed, increased enzyme activity observed in the polyploid species was not proportional to the level of ploidy or expected gene dosage. On the basis of ADH and EST-l zymograms obtained in 2 × and 4 × wheat, probable zymograms for these enzymes in the B-genome donor to 4 × wheat were extrapolated. Neither Ae. speltoides nor Ae. bicornis showed the extrapolated ADH pattern. Amphiploids involving Ae. speltoides and Triticum monococcum or T. aegilopoides fully reproduced the EST-l zymogram of 4 × wheat, but not the ADH. Ae. bicornis × T. aegilopoides amphiploid showed an ADH zymogram similar to that of 4 × wheat, but the EST-l bands were different.

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Comparative transcriptome analysis of mule uncovered several heterosis-related genes for improving muscular endurance and cognition

10.1101/823047 ◽

2019 ◽

Author(s):

Shan Gao

Keyword(s):

Alternative Splicing ◽

Molecular Genetic ◽

Hybrid Vigor ◽

Neuronal System ◽

Future Studies ◽

Genome Wide ◽

A Genome ◽

Genetic Mechanisms ◽

Productive Traits ◽

Genome Wide Gene Expression

AbstractHeterosis has been widely exploited in animal and plant breeding to enhance the productive traits of hybrid progeny of two breeds or two species. Although, there were multiple models for explaining the hybrid vigor, such as dominance and over-dominance hypothesis, its underlying molecular genetic mechanisms remain equivocal. The aim of this study is through comparing the different expression genes (DEGs) and different alternative splicing (DAS) genes to explore the mechanism of heterosis. Here, we performed a genome-wide gene expression and alternative splicing analysis of two heterotic crosses between donkey and horse in three tissues. The results showed that the DAS genes influenced the heterosis-related phenotypes in a unique than DEGs and about 10% DEGs are DAS genes. In addition, over 69.7% DEGs and 87.2% DAS genes showed over-dominance or dominance, respectively. Furthermore, the “Muscle Contraction” and “Neuronal System” pathways were significantly enriched both for the DEGs and DAS genes in muscle. TNNC2 and RYR1 genes may contribute to mule’s great endurance while GRIA2 and GRIN1 genes may be related with mule’s cognition. Together, these DEGs and DAS genes provide the candidates for future studies of the genetic and molecular mechanism of heterosis in mule.

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Characterization of six wheat × Thinopyrum intermedium derivatives by GISH, RFLP, and multicolor GISH

Genome ◽

10.1139/g03-032 ◽

2003 ◽

Vol 46 (3) ◽

pp. 490-495 ◽

Cited By ~ 50

Author(s):

F P Han ◽

G Fedak ◽

A Benabdelmouna ◽

K Armstrong ◽

T Ouellet

Keyword(s):

Genomic Dna ◽

Aegilops Tauschii ◽

Rflp Analysis ◽

Aegilops Speltoides ◽

Thinopyrum Intermedium ◽

B Genome ◽

A Genome ◽

Genetic Stocks ◽

Disomic Addition Lines ◽

Thinopyrum Elongatum

Restriction fragment length polymorphism (RFLP) analysis and multicolor genomic in situ hybridization (GISH) are useful tools to precisely characterize genetic stocks derived from crosses of wheat (Triticum aestivum) with Thinopyrum intermedium and Thinopyrum elongatum. The wheat × Th. intermedium derived stocks designated Z1, Z2, Z3, Z4, Z5, and Z6 were initially screened by multicolor GISH using Aegilops speltoides genomic DNA for blocking and various combinations of genomic DNA from Th. intermedium, Triticum urartu, and Aegilops tauschii for probes. The probing (GISH) results indicated that lines Z1 and Z3 were alien disomic addition lines with chromosome numbers of 2n = 44. Z2 was a substitution line in which chromosome 2D was substituted by a pair of Th. intermedium chromosomes; this was confirmed by RFLP and muticolour GISH. Z4 (2n = 44) contained two pairs of wheat Th. intermedium translocated chromosomes; one pair involved A-genome chromosomes, the other involved D- and A-genome chromosomes. Z5 (2n = 44) contained one pair of wheat Th. intermedium translocated chromosomes involving the D- and A-genome chromosomes of wheat. Z6 (2n = 44) contained one pair of chromosomes derived from Th. intermedium plus another pair of translocated chromosomes involving B-genome chromosomes of wheat. Line Z2 was of special interest because it has some resistance to infection by Fusarium graminearum.Key words: wheat, Thinopyrum intermedium, addition, substitution, and translocation lines, GISH, multicolor GISH, RFLP.

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The mosaic of ancestral karyotype blocks in the Sinapis alba L. genome

Genome ◽

10.1139/g10-097 ◽

2011 ◽

Vol 54 (1) ◽

pp. 33-41 ◽

Cited By ~ 11

Author(s):

Matthew N. Nelson ◽

Isobel A.P. Parkin ◽

Derek J. Lydiate

Keyword(s):

Genetic Research ◽

Brassica Species ◽

Sinapis Alba ◽

Ancestral Karyotype ◽

Crop Species ◽

B Genome ◽

A Genome ◽

The Rich ◽

Conserved Gene ◽

First Time

The organisation of the Sinapis alba genome, comprising 12 linkage groups (n = 12), was compared with the Brassicaceae ancestral karyotype (AK) genomic blocks previously described in other crucifer species. Most of the S. alba genome falls into conserved triplicated genomic blocks that closely match the AK-defined genomic blocks found in other crucifer species including the A, B, and C genomes of closely related Brassica species. In one instance, an S. alba linkage group (S05) was completely collinear with one AK chromosome (AK1), the first time this has been observed in a member of the Brassiceae tribe. However, as observed for other members of the Brassiceae tribe, ancestral genomic blocks were fragmented in the S. alba genome, supporting previously reported comparative chromosome painting describing rearrangements of the AK karyotype prior to the divergence of the Brassiceae from other crucifers. The presented data also refute previous phylogenetic reports that suggest S. alba was more closely related to Brassica nigra (B genome) than to B. rapa (A genome) and B. oleracea (C genome). A comparison of the S. alba and Arabidopsis thaliana genomes revealed many regions of conserved gene order, which will facilitate access to the rich genomic resources available in the model species A. thaliana for genetic research in the less well-resourced crop species S. alba.

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