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Intraspecific nuclear DNA variation in Drosophila 总被引:18,自引:6,他引:12
We have summarized and analyzed all available nuclear DNA sequence
polymorphism studies for three species of Drosophila, D. melanogaster (24
loci), D. simulans (12 loci), and D. pseudoobscura (5 loci). Our major
findings are: (1) The average nucleotide heterozygosity ranges from about
0.4% to 2% depending upon species and function of the region, i.e., coding
or noncoding. (2) Compared to D. simulans and D. pseudoobscura (which are
about equally variable), D. melanogaster displays a low degree of DNA
polymorphism. (3) Noncoding introns and 3' and 5' flanking DNA shows less
polymorphism than silent sites within coding DNA. (4) X-linked genes are
less variable than autosomal genes. (5) Transition (Ts) and transversion
(Tv) polymorphisms are about equally frequent in non-coding DNA and at
fourfold degenerate sites in coding DNA while Ts polymorphisms outnumber Tv
polymorphisms by about 2:1 in total coding DNA. The increased Ts
polymorphism in coding regions is likely due to the structure of the
genetic code: silent changes are more often Ts's than are replacement
substitutions. (6) The proportion of replacement polymorphisms is
significantly higher in D. melanogaster than in D. simulans. (7) The level
of variation in coding DNA and the adjacent noncoding DNA is significantly
correlated indicating regional effects, most notably recombination. (8)
Surprisingly, the level of polymorphism at silent coding sites in D.
melanogaster is positively correlated with degree of codon usage bias. (9)
Three proposed tests of the neutral theory of DNA polymorphisms have been
performed on the data: Tajima's test, the HKA test, and the
McDonald-Kreitman test. About half of the loci fail to conform to the
expectations of neutral theory by one of the tests. We conclude that many
variables are affecting levels of DNA polymorphism in Drosophila, from
properties of nucleotides to population history and, perhaps, mating
structure. No simple, all encompassing explanation satisfactorily accounts
for the data.
相似文献
35.
Caccone A; Moriyama EN; Gleason JM; Nigro L; Powell JR 《Molecular biology and evolution》1996,13(9):1224-1232
Drosophila melanogaster belongs to a closely related group of eight species
collectively known as the melanogaster subgroup; all are native to
sub-Saharan Africa and islands off the east coast of Africa. The
phylogenetic relationships of most species in this subgroup have been well
documented; however, the three most closely related species, D. simulans,
D. sechellia, and D. mauritiana, have remained problematic from a
phylogenetic standpoint as no data set has unambiguously resolved them. We
present new DNA sequence data on the nullo and Serendipity-alpha genes and
combine them with all available nuclear DNA sequence data; the total data
encompass 12 genes and the ITS of rDNA. A methodological problem arose
because nine of the genes had information on intraspecific polymorphisms in
at least one species. We explored the effect of inclusion/exclusion of
polymorphic sites and found that it had very little effect on phylogenetic
inferences, due largely to the fact that 82% of polymorphisms are
autapomorphies (unique to one species). We have also reanalyzed our
previous DNA-DNA hybridization data with a bootstrap procedure. The
combined sequence data set and the DNA-DNA hybridization data strongly
support the sister status of the two island species, D. sechellia and D.
mauritiana. This at least partially resolves what had been a paradox of
parallel evolution in these two species.
相似文献
36.
We have characterized a mutant of Rhizobium meliloti strain 2011 which cannot use ammonium as a nitrogen source. This mutant, RTm2620, was found to have significantly altered glutamate synthase activity. Both the mutant and the wild-type strains had glutamate dehydrogenase activity, which, although stimulated in the presence of glutamate and ammonium, was apparently insufficient to allow ammonium assimmilation. We conclude that the glutamine synthetase-glutamate synthase pathway may be the normal mode of ammonium assimilation by this strain in the free-living state. Independent revertants of Rm2620 were isolated and fell into two classes. Class I revertants regained partial glutamate synthase activity and had the same levels of glutamate dehydrogenase activity as Rm2620. Class II revertants retained the altered glutamate synthase activity but acquired a very high level of assimilatory glutamate dehydrogenase activity. Both classes were found to be altered in their symbiotic properties, although the original Rm2620 mutant was normal in this regard. 相似文献
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Lipopolysaccharide mutants of Rhizobium meliloti are not defective in symbiosis 总被引:9,自引:7,他引:2
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Mutants of Rhizobium meliloti selected primarily for bacteriophage resistance fall into 13 groups. Mutants in the four best-characterized groups (class A, lpsB, lpsC, and class D), which map to the rhizobial chromosome, appear to affect lipopolysaccharide (LPS) as judged by the reactivity with monoclonal antibodies and behavior on sodium dodecyl sulfate-polyacrylamide gels of extracted LPS. Mutations in all 13 groups, in an otherwise wild-type genetic background, are Fix+ on alfalfa. This suggests that LPS does not play a major role in symbiosis. Mutations in lpsB, however, are Fix- in one particular genetic background, evidently because of the cumulative effect of several independent background mutations. In addition, an auxotrophic mutation evidently equivalent to Escherichia coli carAB is Fix- on alfalfa. 相似文献
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