scholarly journals Automatic construction of restriction site maps

1982 ◽  
Vol 10 (1) ◽  
pp. 217-227 ◽  
Author(s):  
William R. Pearson
Keyword(s):  
Restriction Site ◽  
Automatic Construction ◽  
Restriction Site Maps

The Drosophila montium subgroup species. Phylogenetic relationships based on mitochondrial DNA analysis

Genome ◽  
1996 ◽  
Vol 39 (5) ◽  
pp. 874-883 ◽  
Author(s):  
Nikolas Nikolaidis ◽  
Zacharias G. Scouras
Keyword(s):  
Mitochondrial Dna ◽  
Phylogenetic Relationships ◽  
Phylogenetic Trees ◽  
Dna Analysis ◽  
Restriction Site ◽  
Species Group ◽  
The Other ◽  
Complex Species ◽  
Restriction Site Maps ◽  
Montium Subgroup

Mitochondrial DNA (mtDNA) restriction site maps for three Drosophila montium subgroup species of the melanogaster species group, inhabiting Indian and Afrotropical montium subgroup territories, were established. Taking into account previous mtDNA data concerning six oriental montium species, a phylogeny was established using distance-matrix and parsimony methods. Both genetic diversity and mtDNA size variations were found to be very narrow, suggesting close phylogenetic relationships among all montium species studied. The phylogenetic trees that were constructed revealed three main lineages for the montium subgroup species studied: one consisting of the Afrotropical species Drosophila seguyi, which is placed distantly from the other species, one comprising the north-oriental (Palearctic) species, and one comprising the southwestern (south-oriental, Australasian, Indian, and Afrotropical) species. The combination of the mtDNA data presented here with data from other species belonging to the melanogaster and obscura subgroups revealed two major clusters: melanogaster and obscura. The melanogaster cluster is further divided into two compact lineages, comprising the montium subgroup species and the melanogaster complex species; the species of the other complex of the melanogaster subgroup, yakuba, disperse among the obscura species. The above grouping is in agreement with the mtDNA size variations of the species. Overall, among all subgroups studied, the species of the montium subgroup seem to be the most closely related. Key words : mtDNA restriction site maps, mtDNA size variations, Drosophila, phylogeny.

scholarly journals Restriction site maps of a new type of bovine herpesvirus 1

1986 ◽  
Vol 42 (1) ◽  
pp. 93-93
Author(s):  
M. Engels ◽  
C. Giuliani ◽  
P. Wild ◽  
R. Wyler
Keyword(s):  
Restriction Site ◽  
Bovine Herpesvirus ◽  
Bovine Herpesvirus 1 ◽  
New Type ◽  
Restriction Site Maps ◽  
Herpesvirus 1

Comparative restriction site maps of chloroplast DNA of Piceaabies, Piceaglauca, Piceamariana, and Piceasitchensis

1993 ◽  
Vol 23 (3) ◽  
pp. 427-435 ◽  
Author(s):  
E.E. White ◽  
R.F. Watkins ◽  
D.P. Fowler
Keyword(s):  
Chloroplast Dna ◽  
Chloroplast Genome ◽  
Restriction Fragment ◽  
Gene Order ◽  
Species Differences ◽  
Restriction Site ◽  
Gene Organization ◽  
Physical Maps ◽  
Restriction Site Maps

Physical maps of chloroplast DNA of four species of Picea Diet, were compared. Restriction site differences occur between species. Four restriction site mutations were mapped, and between species differences in three more were inferred from restriction fragment patterns. Differences observed among species were not sufficient to allow phylogenetic interpretations. No differences in gene order among species were observed. Gene organization in the chloroplast genome of Picea is compared with that of Pinus L. and Pseudotsuga Carr. Gene order is colinear with that of Pseudotsuga with the exception of one inversion. Though the genomes of Picea and Pseudotsuga are colinear over a greater length than those of Picea and Pinus, this does not imply that Picea and Pseudotsuga are more closely related to each other than to Pinus, since these three patterns of gene organization could have evolved by inversion events that differed only in the order in which they occurred.

IDENTIFYING THE C677T POLYMORPHISM OF MTHFR GENE BY PCR-RFLP TECHNIQUE

2011 ◽  
pp. 28-35
Author(s):  
Keyword(s):  
Internal Control ◽  
Restriction Site ◽  
Mthfr Gene ◽  
C677t Polymorphism ◽  
Mthfr Genotype ◽  
Restriction Digest ◽  
Genotype Frequencies ◽  
Pcr Rflp ◽  
Sequencing Technique ◽  
Volunteer Group

Background: The C677T polymorphism of MTHFR gene is a risk factor of many diseases. This study is aimed at: (1) Improving a PCR-RFLP process with the own designed primers to identify the C677T polymorphism of MTHFR gene. (2) Evaluating the prevalence of the C677T polymorphism of MTHFR gene in volunteer group. Materials and method: DNA samples was extracted from peripheral blood of 60 volunteers. Designing primers by using FastPCR software, then improving PCR technique. Standardizing the optimal conditions of restriction digest by HinfI. Confirming the results of polymorphism by DNA sequencing technique. Results: We designed successfully primers to amplify fragment of MTHFR gene including C677T polymorphism and an obligatory restriction site of HinfI (as internal control). 0.5 µl of HinfI enzyme (10 U/µl) is enough for restriction digest. The MTHFR genotype frequencies were: 71.67 % (677CC); 25% (677CT); and 3.33 % (677TT). Conclusion: We standardized successfully PCR-RFLP technique to identifying C677T polymorphism of MTHFR gene. Keywords: C677T polymorphism, MTHFR gene, PCR-RFLP

Selection on X-linked Genes During Speciation in the Drosophila athabasca Complex

Genetics ◽  
1996 ◽  
Vol 144 (2) ◽  
pp. 689-703 ◽  
Author(s):  
Michael J Ford ◽  
Charles F Aquadro
Keyword(s):  
Computer Simulation ◽  
Natural Selection ◽  
Molecular Evolution ◽  
Restriction Site ◽  
Neutral Model ◽  
Background Selection ◽  
Selective Sweeps ◽  
Differential Migration ◽  
Site Survey ◽  
Low Levels

Abstract We present the results of a restriction site survey of variation at five loci in Drosophila athabasca, complimenting a previous study of the period locus. There is considerably greater differentiation between the three semispecies of D. athabasca at the period locus and two other X-linked genes (neon-transient-A and E74A) than at three autosomal genes (Xdh, Adh and RC98). Using a modification of the HKA test, which uses fixed differences between the semispecies and a test based on differences in Fst among loci, we show that the greater differentiation of the X-linked loci compared with the autosomal loci is inconsistent with a neutral model of molecular evolution. We explore several evolutionary scenarios by computer simulation, including differential migration of X and autosomal genes, very low levels of migration among the semispecies, selective sweeps, and background selection, and conclude that X-linked selective sweeps in at least two of the semispecies are the best explanation for the data. This evidence that natural selection acted on the X-chromosome suggests that another X-linked trait, mating song differences among the semispecies, may have been the target of selection.

scholarly journals Hierarchical Analysis of Nucleotide Diversity in Geographically Structured Populations

Genetics ◽  
1996 ◽  
Vol 142 (2) ◽  
pp. 629-639 ◽  
Author(s):  
Kent E Holsinger ◽  
Roberta J Mason-Gamer
Keyword(s):  
Nucleotide Diversity ◽  
Restriction Site ◽  
Rooted Tree ◽  
Structured Populations ◽  
Hierarchical Analysis ◽  
Restriction Site Variation ◽  
Hierarchical Levels ◽  
Site Variation ◽  
The Mean ◽  
Mean Time

Abstract Existing methods for analyzing nucleotide diversity require investigators to identify relevant hierarchical levels before beginning the analysis. We describe a method that partitions diversity into hierarchical components while allowing any structure present in the data to emerge naturally. We present an unbiased version of Nei's nucleotide diversity statistics and show that our modification has the same properties as Wright's  F  ST. We compare its statistical properties with several other F  ST estimators, and we describe how to use these statistics to produce a rooted tree of relationships among the sampled populations in which the mean time to coalescence of haplotypes drawn from populations belonging to the same node is smaller than the mean time to coalescence of haplotypes drawn from populations belonging to different nodes. We illustrate the method by applying it to data from a recent survey of restriction site variation in the chloroplast genome of Coreopsis grandiflora.

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