An increase in studies using restriction site-associated DNA sequencing (RADseq) methods has led to a need for both the development and assessment of novel bioinformatic tools that aid in the generation and analysis of these data. Here, we report the availability of AftrRAD, a bioinformatic pipeline that efficiently assembles and genotypes RADseq data, and outputs these data in various formats ...

The hypothesis that three separate mutations to the βS -globin gene have occurred in Africa in challenged. The distributions of the βS and other β-globin haplotypes and a simulation of the diffusion of the βS gene are presented and argued to be more in accord with the rapid diffusion of a single mutant that by recombination and gene conversion now occurs on several different haplotypes.

Genetic analysis in bacteria often involves mapping novel mutations. Traditionally, mapping has been performed using time-consuming methods such as conjugation and transductional analysis. However, an alternative strategy is to use physical mapping using restriction enzymes, which cleave bacterial chromosomal DNA at relatively few sites, generating DNA fragments that can be resolved by pulsed-f...

Upland cotton (Gossypium hirsutum L., 2n = 52, AADD) is an allotetraploid, therefore the discovery of single nucleotide polymorphism (SNP) markers is difficult. The recent emergence of genome complexity reduction technologies based on the next-generation sequencing (NGS) platform has greatly expedited SNP discovery in crops with highly repetitive and complex genomes. Here we applied restriction...

The Dade group D(P ) of a finite p-group P , formed by equivalence classes of endopermutation modules, is a finitely generated abelian group. Its torsion-free rank equals the number of conjugacy classes of non-cyclic subgroups of P and it is conjectured that every nontrivial element of its torsion subgroup D(P ) has order 2, (or also 4, in case p = 2). The group D(P ) is closely related to the ...

Let X be a smooth, complex projective variety, and Y be a very general, sufficiently ample hypersurface in X. A conjecture of M. V. Nori states that the natural restriction map CH(X)Q → CH(Y )Q is an isomorphism for all p < dimY and an injection for p = dimY . This is the generalized Noether-Lefschetz conjecture. We prove an infinitesimal version of this conjecture.

We have screened a genomic library of Trametes versicolor for genes whose expression is associated with nitrogen starvation, which has been shown to induce ligninolytic activity. Using two different approaches based on differential expression, we isolated 29 clones. These were shown by restriction mapping and cross-hybridization to code for 11 distinct differentially expressed genes. Northern a...

A Sfi I restriction map of the fission yeast Schizosaccharomyces pombe genome was aligned with the Not I restriction map. There are 16 Sfi I sites in the S. pombe genome. Three Sfi I sites are on chromosome III which is devoid of Not I sites. The sizes of the entire genome and individual chromosomes, calculated from the Sfi I fragment sizes, are consistent with that calculated from the Not I fr...

It is well-known in algebraic geometry that the geometry of a given variety is influenced by the geometry of its subvarieties. It less common, but not unusual, that a given ambient variety forces to some extent the geometry of its subvarieties. A particularly nice case of the latter is given by line bundles, whose properties do very much influence the geometry. If Y is a smooth variety and i : ...

Recently a new method for obtaining restriction maps was developed by David Schwartz at NYU. Using this method restriction maps are created from uorescent images of individual molecules obtained using a microscope. For every individual observed molecule, image processing methods are used to generate a list of the approximate locations of the sites where the molecule is cut by the restriction en...