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Population structure, speciation, and introgression in the Anopheles gambiae complex.

We review here what is known about the population structure and evolutionary dynamics of members of the Anopheles gambiae complex with emphasis on the situation in West Africa. First, the importance of the 2nd chromosome inversion polymorphism is demonstrated especially in adaptation to levels of aridity, a major environmental variable in Africa. This affects the distribution of karyotypes on both a macro- and micro-geographic scale as well as temporally. Such differentiation leads to karyotypes being differentially effective transmitters of malaria and differentially susceptible to indoor residual spraying of insecticides. Second, we review the evidence that cryptic taxa, especially in An. gambiae s.s., exist. This observation stems from both karyotype studies and molecular studies. It is abundantly clear that West African populations of An. gambiae s.s. are often not panmictic units, with premating factors evidently acting to maintain distinct genetic forms. Third, we review phylogenetic studies that have revealed the presence of introgression between the two most important vectors, An. gambiae and An. arabiensis. This is most evident for the 2nd chromosome inversions. This interpretation of phylogenetic data is consistent with a direct laboratory study indicating inversions in this chromosome are stably maintained in back-crossed populations. All of this information has led to the view that members of the An. gambiae complex are highly variable with an abundance of adaptive genetic variation. This presents a significant challenge to vector control programs designed to reduce malaria in sub-Saharan Africa.

Africa, Western↗

[Detection of alien chromatins introgressed into wheat in mitotic interphase] [In Process Citation]

Fluorescent in situ hybridization of biotin labelled total genomic DNA from alien species as probes was applied to illustrate chromatin behaviors of Secale cereale L., Thinopyrum intermedium Host., Avana fatua L., and Dasypyrum villosum (L.) Candagy introgressed into wheat (Triticum aestivum L.) in interphase cells. A pair of 1RS chromosome arms in 1BL/1RS translocations were visible as discrete domains traversing through the interphase nucleolus. The substitution and addition 1R chromosomes as well as the translocated chromosome segments of Th. intermedium and A. avena appeared as bright spots in interphase. In callli derived from immature embryos of a hybrid between T. durum-D. villosum amphidiploid and T. aestivum, seven D. villosum originated chromatins presented nearly consecutive trend from spots to domains. Chromatins from both parents did not tend to mix with each other at interphase of the hybrid calli. It is feasible to count the number of alien chromosomes and chromosome segments in the case of addition, substitution and/or translocation at interphase. As far as more alien chromosomes are considered, it seems not reliable to analyze the interphase nucleolus alone because some of the signals might be overlapped by chromatins of wheat. Neither S. cereale satellited chromosome 1R nor D. villosum 1V chromosome involving within the envelop of interphase nucleolus were associated with nucleoli, suggesting that their functions in the formation of nucleoli are inhibited in the wheat background.

Journal Article↗

Retrotransposon activation followed by rapid repression in introgressed rice plants.

Plant retrotransposons are largely inactive during normal development, but may be activated by stresses. Both copia-like and gypsy-like retrotransposons of rice were activated by introgression of DNA from the wild species Zizania latifolia Griseb. The copy number increase was associated with cytosine methylation changes of the elements. Activity of the elements was ephemeral, as evidenced by nearly identical genomic Southern hybridization patterns among randomly chosen individuals both within and between generations for a given line, and the absence of transcripts based on Northern analysis. DNA hypermethylation, internal sequence deletion, and possibly other mechanisms are likely responsible for the rapid element repression. Implications of the retroelement dynamics on plant genome evolution are discussed.

Cytosine↗

[Genetic analysis for introgressive genes of petal color from Gossypium bickii to G. hirsutum L].

The character of red petals with a large basal spot was transferred from Gossypium bickii into G. hirsutum L., and the pure lines (HBRL) with the character were obtained by Liang Zhenglan in 1988. Results of genetic analysis for G. hirsutum pure line of red petals (R3bic) and large basal spot (R2bic) were reported in the present study. The large basal spot was dominant to the small basal-spot and spotlessness of G. hirsutum. R2bic was shown to be allelic to R2 of G. hirsutum, and R2bic, R2 and r2 were multiple alleles. R2bic was found to be linked with Lc1, and linkage between R2bic and Lc1 was estimated at 37.31 +/- 2.44 centimorgans, The red petal (R3bic) was epistatic dominance to the yellow petal (Y1) and cream petal (y1), and R3bic is closely linked with R2bic. It is proposed that the introgressive gene of the large basal spot from G. bickii into G. hirsutum be assigned gene symbol R2bic, and the red petals be given the gene symbol R3bic.

Color↗

Introgression of rye chromatin on chromosome 2D in the Portuguese wheat landrace 'Barbela.'.

The old Portuguese wheat landrace aggregate known as 'Barbela' shows good productivity under the low-fertility conditions often associated with acid soils. The use of genomic rye DNA, in combination with 45S rDNA and the repetitive sequences dpTal and pScl 19.2 as probes, in two sequential in situ hybridization steps enabled the identification of all chromosomes in the 'Barbela' wheat lines and the detection of the introgression of rye-origin chromatin onto wheat chromosome arm 2DL in two of the lines. Amplification of microsatellite loci using published primer pairs showed that the distal segment of wheat chromosome 2DL, which was involved in the rye translocation, was deleted. The identification and characterization of small recombinant chromosome segments in wheat-rye lines may allow their use in plant breeding programmes. Their presence in farmer-maintained material demonstrates the importance of maintaining, characterizing, and collecting landrace material before valuable genetic combinations are lost as uniform commercial crops are introduced.

Chromatin↗

Identification of an S-locus glycoprotein allele introgressed from B. napus ssp. rapifera to B. napus ssp. oleifera.

Self-incompatible Brassica napus ssp. oleifera lines were generated by introgressing the S-locus from the self-incompatible B. napus ssp. rapifera Z line into the self-compatible cultivars, Topas and Regent, resulting in T2 and R2, respectively. Screening of a cDNA library made from R2 stigma RNA produced several candidate SLG (S-locus glycoprotein) cDNAs. One of the cDNAs, A14, was found to be represented in only the R2, T2 and Z lines. In addition, the corresponding A14 gene was demonstrated to segregate with the T2 self-incompatibility phenotype in an F2 population derived from a cross between T2 and Topas, and to exhibit high mRNA levels in the stigmas prior to anthesis. Sequence analysis of the A14 cDNA revealed close homology to B. oleracea SLG alleles associated with a Class I high activity self-incompatibility phenotype.

Alleles↗

[Introgressive hybridization off chars of the genus Salvelinus as inferred from mitocchondrial DNA variation].

Nucleotide sequence analysis of the mitochondrial cyttochrome b gene in the genus Salvelinus revealed hybrids with S. leucomaenis in S. malma malma populations ofthe Northern Okhotsk Sea basin. Hybrids of S. m. malma and S. m. krascheninnikovi were found in S. m. malma populations from the Northern Okhotsk Sea basin and Kamchatka. The findings testify to a secondary contact and mtDNA transfer between these species and forms. It was assumed that introgressive hybridization took place both long ago and relatively recently and occurred in one direction: from S. leucomaenis or S. m. krascheninnikovi to S. m. malma.

Animals↗

Genetic analysis of the T. aestivum/Ae. sharonensis introgressive lines of common wheat for resistance to powdery mildew.

Results of investigation of peculiarities of common wheat hybridological analysis for a discrete character, resistance for powdery mildew, governed by the alien gene from Ae. sharonensis are present. Relation between genome structure of crossed introgressive lines and deviation of empirical ratios of segregation in F2 from theoretical, based on the assumption about monogenic inheritance of considered character is established. The approach to the quantitative count of influence of such connection on distortion of actual segregation in comparison with theoretically expected ratio is developed.

Ascomycota↗

[Genetic evidence of extensive introgression of short-tailed ground squirrel genes in a hybridization zone of Spermophilus major and S. erythrogenys, inferred from sequencing of the mtDNA cytochrome b gene].

We have completely sequenced the mtDNA cytochrome b gene of ground squirrels from the zone of overlapping ranges of Spermophilus major and S. erythrogenys in the Tobol-Ishim interfluve, which is a putative hybridization zone of these species. The results of the sequencing showed extensive introgression of mtDNA genes of the short-tailed ground squirrel S. e. brevicauda, whose haplotype had fully replaced the S. major haplotype. All of the ground squirrels from the Tobol-Ishim interfluve had a variant of the S. e. brevicauda mtDNA haplotype that was specific for this zone. On average, 119 substitutions (10.44%) were found between S. major from Ul'yanovsk oblast and S. e. brevicauda from the northern Kazakhstan, the mean genetic distance (D) between them being 0.115, which conforms to the corresponding parameters for the S. e. brevicauda-S. pygmaeus pair (122 substitutions, D = 118). Insignificant differences (seven substitutions, D = 0.043) were found between the S. major and S. pygmaeus haplotypes, which suggest that these species have similar mitochondrial haplotypes. Five to ten nucleotide substitutions (0.44--0.88%) were detected between the animals from the Tobol--Ishim interfluve and S. e. brevicauda. The mtDNA haplotype divergence D within the genus Spermophilus (ten species) for all codon positions ranged from 0.035 to 0.158. Phylogenetic reconstructions (MP, ML, and NJ trees) showed two well-differentiated clusters with high bootstrap support. However, there was different branching topology within the cluster and their species composition varied. The maximum likelihood tree, ML, differentiating the species into two subgenera, Citellus and Colobotis, most reliably reflected taxonomic relationships of the species from the genus Spermophilus, inferred from morphological and genetic biochemical data. The morphologically pure S. major (subgenus Colobotis) animals, used in the analysis, proved to carry the haplotype of another species, S. pygmaeus (subgenus Citellus). This poses a question on the existence of the specific haplotype of S. major, the reason of its replacement by haplotype of other species, and possible consequences of this phenomenon for survival of the species.

Animals↗

[Arguments for the modification of the genome (introgression) of the human parasite Schistosoma haematobium by genes from S. bovis, in Niger].

Characterization of schistosome populations from human in eastern Niger, through intra-uterine egg morphology of female parasites and phenotopic analyses of worms observed for acid phosphatase using electrophoretic separation, renders results that suggest an intogression of S. haematobium from man by genes of S. bovis, a parasite of domestic livestock. The origin of this introgression, that could implicate S. curassoni as well, another livestock parasite that hybridize with S. bovis, is discussed.

Animals↗

Molecular genetic study of introgression between Saccharomyces bayanus and S. cerevisiae.

The genomic constitution of different S. bayanus strains and natural interspecific Saccharomyces hybrids has been studied by genetic and molecular methods. Unlike S. bayanus var. uvarum, some S. bayanus var. bayanus strains (the type culture CBS 380, CBS 378, CBS 425, CBS 1548) harbour a number of S. cerevisiae subtelomeric sequences: Y', pEL50, SUC, RTM and MAL. The two varieties, having 86-100% nDNA-nDNA reassociation, are partly genetically isolated from one another but completely isolated from S. cerevisiae. Genetic and molecular data support the maintaining of var. bayanus and var. uvarum strains in the species S. bayanus. Using Southern hybridization with species-specific molecular markers, RFLP of the MET2 gene and flow cytometry analysis, we showed that the non-S. cerevisiae parents are different in lager brewing yeasts and in wine hybrid strains. Our results suggest that S. pastorianus is a hybrid between S. cerevisiae and S. bayanus var. bayanus, while S. bayanus var. uvarum contributed to the formation of the wine hybrids S6U and CID1. According to the partial sequence of ACT1 gene and flow cytometry analysis, strain CID1 is a triple hybrid between S. cerevisiae, S. kudriavzevii and S. bayanus var. uvarum.

Beer↗

Molecular systematics and the origin of species: new syntheses or methodological introgressions?

The advent of molecular phylogenetics stimulated the need to reprise for many discussions surrounding species concepts. The interpretation of cladograms as accurate representations of phylogeny, when the characters upon which they are based exhibit a reticulate pattern, is inconsistent with the epistemological axiom of hierarchy we assign to the cladistic method (Brower, 2000c). Discrepancies in the interpretation of cladograms would appear to account for differences in the kinds of questions to which they are applied. The philosophical and empirical issues surrounding this subject are examined in this chapter.

Animals↗

Biochemical markers in a species endangered by introgression: the red wolf.

The red wolf (Canis rufus), native to much of the southeastern United States, is endangered by man's activities and by hybridization with other species of the genus Canis. The absence of diagnostic morphological markers to distinguish the red wolf from its hybrids has led to the application of the methods of biochemical genetics to this problem. The finding of a unique electrophoretically determined allele with a distribution congruent with the geographical distribution of the remaining red wolf population is reported.

Acid Phosphatase↗

Introgression of Elymus trachycaulus chromatin into common wheat.

A number of wheat-Elymus trachycaulus (2n = 4x = 28, genomically StStHtHt) chromosome addition, substitution, and translocation lines were isolated from the derivatives of an E. trachycaulus x wheat hybrid. Eighteen out of a total of 28 chromosome arms of E. trachycaulus were recovered in the addition lines. The genomic affinity of individual E. trachycaulus chromosomes was analysed by comparative chromosome banding and in situ hybridization using genome-specific repetitive DNA sequences as probes. The homoeology of the E. trachycaulus chromosomes added to wheat was determined by storage protein, isozyme, and restriction fragment length polymorphism analysis. Alloplasmic wheat-E. trachycaulus chromosome additions were isolated which only involved chromosome 1Ht and 1St that carry fertility restoration gene Rf-Ht1 and Rf-St1, respectively. Based on the results of production and characterization of a wheat-E. trachycaulus 5Ht(5B) substitution line, it is likely that some wheat chromosomes can be well compensated genetically by E. trachycaulus chromosomes. Several spontaneous wheat-E. trachycaulus chromosome translocation lines were detected. All the translocation lines involved either 1Ht or 1St. To estimate the potential of recombination between wheat and E. trachycaulus chromosomes, a backcross population derived from a plant which was double monosomic for chromosomes 7A and 7AL.7AS-1StS and a ph1b gene was developed. The plants from this population were analysed for 1St-specific genetic markers and no recombinant was recovered.

Chromosome Banding↗

QTL mapping and introgression of yield-related traits from Oryza glumaepatula to cultivated rice ( Oryza sativa) using microsatellite markers.

Rice ( Oryza sativa) cultivar development currently faces the task of overcoming yield plateaus, which is difficult due to the narrow genetic base of breeding programs. Oryza glumaepatula is a diploid wild relative of cultivated rice, native to Central and South America, and is therefore a potential source of alleles of agronomic importance to rice breeding programs. We studied 11 agronomic traits in BC(2)F(2) families of the interspecific cross Oryza sativa x O. glumaepatula. Transgressive lines which are almost isogenic to the elite recurrent O. sativa parent were identified for most of these traits. Quantitative trait locus (QTL) analysis was performed by single-point and interval mapping using a molecular map based on 157 microsatellite and STS markers. Marker regions accounting for 14.5 to 72.9% of a phenotypic variation trait were identified in 9 of the 12 rice chromosomes. Positive QTL effects from O. glumaepatula were observed in chromosomal regions associated with tillering and panicle-number traits.

Journal Article↗

Introgression of self-compatibility from Coffea heterocalyx to the cultivated species Coffea canephora.

Self-compatibility segregation was assessed in two successive backcross progenies originating from an interspecific cross between Coffea canephora (self-incompatible) and Coffea heterocalyx (self-compatible). After self- and cross-pollination, pollen tube behaviour in styles was observed under ultraviolet fluorescence microscopy and fruit-set was determined at harvesting time. Segregation ratios in the two progenies were consistent with monofactorial control of self-compatibility. Self-compatible plants exhibited higher fruit-set than self-incompatible ones in open-pollination conditions. Segregation of AFLP markers was scored in the first backcross progeny. By molecular linkage analysis, the S locus could be mapped to a short linkage group.

Journal Article↗

Introgression of a quantitative trait locus for yield from Glycine soja into commercial soybean cultivars.

The value of exotic germplasm in broadening the genetic base of most crops has been demonstrated many times. However, the difficulties involved in working with exotic germplasm have limited their utility in plant breeding. Unwanted linkages often thwart the successful incorporation of beneficial exotic genes into commercial lines. Thus, the use of exotics in traditional breeding makes the process of crop improvement a tedious, time-consuming and expensive endeavor. The availability of molecular markers makes it possible to isolate specific genomic regions and transfer them into commercial varieties with minimal linkage drag. We found a yield-enhancing quantitative trait locus (QTL) from Glycine soja (Siebold and Zucc.) by evaluating a population of 265 BC(2) individuals from a cross between HS-1 and PI 407305. The yield QTL was located on linkage group B2(U26) of the soybean [Glycine max (L.) Merrill] genetic linkage map. In a 2-year, multi-location study, individuals carrying the PI 407305 haplotype at the QTL locus demonstrated a 9.4% yield advantage over individuals that did not contain the exotic haplotype. When tested in a more uniform "HS-1-like" background in two locations, we observed an 8% yield advantage for lines that carry the PI 407305 haplotype. We further assessed the QTL effect in various elite soybean genetic backgrounds. The yield effect was consistently observed in only two of six genetic backgrounds. Individuals carrying the PI 407305 haplotype at the QTL locus had a 9% yield advantage in yield trials across locations. Despite the limited adaptability of this yield-QTL across genetic backgrounds, this study demonstrates the potential of exotic germplasm for yield enhancement in soybean.

Alleles↗

A major QTL introgressed from wild Lycopersicon hirsutum confers chilling tolerance to cultivated tomato (Lycopersicon esculentum).

Many plants of tropical or subtropical origin, such as tomato, suffer damage under chilling temperatures (under 10 degrees C but above 0 degrees C). An earlier study identified several quantitative trait loci (QTLs) for shoot turgor maintenance (stm) under root chilling in an interspecific backcross population derived from crossing chilling-susceptible cultivated tomato (Lycopersicon esculentum) and chilling-tolerant wild L. hirsutum. The QTL with the greatest phenotypic effect on stm was located in a 28 cM region on chromosome 9 (designated stm 9), and enhanced chilling-tolerance was conferred by the presence of the Lycopersicon hirsutum allele at this QTL. Here, near-isogenic lines (NILs) were used to verify the effect of stm 9, and recombinant sub-NILs were used to fine map its position. Replicated experiments were performed with NILs and sub-NILs in a refrigerated hydroponic tank in the greenhouse. Sub-NIL data was analyzed using least square means separations, marker-genotype mean t-tests, and composite interval mapping. A dominant QTL controlling shoot turgor maintenance under root chilling was confirmed on chromosome 9 using both NILs and sub-NILs. Furthermore, sub-NILs permitted localization of stm 9 to a 2.7 cM interval within the original 28 cM QTL region. If the presence of the L. hirsutum allele at stm 9 also confers chilling-tolerance in L. esculentum plants grown under field conditions, it has the potential to expand the geographic areas in which cultivated tomato can be grown for commercial production.

Acclimatization↗