Assessing genetic diversity of lake trout (Salvelinus namaycush) populations in Saskatchewan

Climate change may lead to declines in lake trout (Salvelinus namaycush) populations and change the structure of the ecosystem in which they live. The lake trout is a keystone species in ecosystems of northern temperate lakes and these declines may subsequently reduce the genetic diversity found in these salmonids. Populations that contain greater genetic variation may have an increased capacity to adapt to changes in the ecosystem. Therefore, an understanding of the genetic diversity found in lake trout populations is required for their effective conservation and management. As a result, this study aimed to examine the genetic diversity and phylogeography of lake trout populations in north central Canada.The genetic diversity of lake trout from 19 lakes in Saskatchewan was examined using partial regions of the ND2 and ND5 mtDNA genes. A total of 607 tissue samples were analyzed using PCR-based single stranded conformation polymorphism (SSCP) and DNA sequencing. Although the ND5 gene fragment had minimal intraspecific variation, eleven sequence types were detected in the ND2 gene. Each sequence type differed in relative frequency between and among the lake trout populations sampled. One particular southern lake trout population, Crean Lake, had markedly different genetic composition in comparison to other lakes in the region. In the 1950’s and 1960’s, Crean Lake was stocked with lake trout from neighbouring Wassegam Lake in an attempt to increase population numbers. The sequence types of Crean Lake trout and their relative frequencies were dramatically different to those in Wassegam Lake. This suggests that the stocked fish may have been unsuccessful in their establishment/reproduction within Crean Lake. Lake trout from this lake also contained the highest frequency (44%) of rare ND2 sequence type “B”. Sequence type B was only detected in one other lake (La Ronge), at a very low frequency. The mutational changes in the eleven ND2 mitochondrial DNA sequence types represented three different amino acid sequence types. Substitutions of Threonine and Isoleucine occurred, resulting in two polar amino acids with much different hydropathy indexes. This may affect the tertiary structure of the protein, possibly indicating functional differences. Functionally different proteins may be exhibiting characteristics that allow lake trout to flourish in their environment. The fragments of both the ND2 and ND5 genes proved to be valuable for phylogenetic analyses within the Salmonidae. The genetic markers established in the present study provide the basis for future work on population genetics of lake trout. It would be advantageous to broaden the area of study in order to compare the genetic diversity found within the study area to other regions of Canada. This would determine whether the genetic diversity detected in this study is significantly greater than in other populations at a national scale. Management strategies should ultimately attempt to conserve the genetic diversity found within the lake trout populations of north central Saskatchewan

Search for rare quark-annihilation decays, B --> Ds(*) Phi

We report on searches for B- --> Ds- Phi and B- --> Ds*- Phi. In the context of the Standard Model, these decays are expected to be highly suppressed since they proceed through annihilation of the b and u-bar quarks in the B- meson. Our results are based on 234 million Upsilon(4S) --> B Bbar decays collected with the BABAR detector at SLAC. We find no evidence for these decays, and we set Bayesian 90% confidence level upper limits on the branching fractions BF(B- --> Ds- Phi) Ds*- Phi)<1.2x10^(-5). These results are consistent with Standard Model expectations.Comment: 8 pages, 3 postscript figues, submitted to Phys. Rev. D (Rapid Communications

Investigation of the Interaction between the Large and Small Subunits of Potato ADP-Glucose Pyrophosphorylase

ADP-glucose pyrophosphorylase (AGPase), a key allosteric enzyme involved in higher plant starch biosynthesis, is composed of pairs of large (LS) and small subunits (SS). Current evidence indicates that the two subunit types play distinct roles in enzyme function. Recently the heterotetrameric structure of potato AGPase has been modeled. In the current study, we have applied the molecular mechanics generalized born surface area (MM-GBSA) method and identified critical amino acids of the potato AGPase LS and SS subunits that interact with each other during the native heterotetrameric structure formation. We have further shown the role of the LS amino acids in subunit-subunit interaction by yeast two-hybrid, bacterial complementation assay and native gel. Comparison of the computational results with the experiments has indicated that the backbone energy contribution (rather than the side chain energies) of the interface residues is more important in identifying critical residues. We have found that lateral interaction of the LS-SS is much stronger than the longitudinal one, and it is mainly mediated by hydrophobic interactions. This study will not only enhance our understanding of the interaction between the SS and the LS of AGPase, but will also enable us to engineer proteins to obtain better assembled variants of AGPase which can be used for the improvement of plant yield

Mouse HORMAD1 and HORMAD2, two conserved meiotic chromosomal proteins, are depleted from synapsed chromosome axes with the help of TRIP13 AAA-ATPase

Meiotic crossovers are produced when programmed double-strand breaks (DSBs) are repaired by recombination from homologous chromosomes (homologues). In a wide variety of organisms, meiotic HORMA-domain proteins are required to direct DSB repair towards homologues. This inter-homologue bias is required for efficient homology search, homologue alignment, and crossover formation. HORMA-domain proteins are also implicated in other processes related to crossover formation, including DSB formation, inhibition of promiscuous formation of the synaptonemal complex (SC), and the meiotic prophase checkpoint that monitors both DSB processing and SCs. We examined the behavior of two previously uncharacterized meiosis-specific mouse HORMA-domain proteins-HORMAD1 and HORMAD2-in wild-type mice and in mutants defective in DSB processing or SC formation. HORMADs are preferentially associated with unsynapsed chromosome axes throughout meiotic prophase. We observe a strong negative correlation between SC formation and presence of HORMADs on axes, and a positive correlation between the presumptive sites of high checkpoint-kinase ATR activity and hyper-accumulation of HORMADs on axes. HORMADs are not depleted from chromosomes in mutants that lack SCs. In contrast, DSB formation and DSB repair are not absolutely required for depletion of HORMADs from synapsed axes. A simple interpretation of these findings is that SC formation directly or indirectly promotes depletion of HORMADs from chromosome axes. We also find that TRIP13 protein is required for reciprocal distribution of HORMADs and the SYCP1/SC-component along chromosome axes. Similarities in mouse and budding yeast meiosis suggest that TRIP13/Pch2 proteins have a conserved role in establishing mutually exclusive HORMAD-rich and synapsed chromatin domains in both mouse and yeast. Taken together, our observations raise the possibility that involvement of meiotic HORMA-domain proteins in the regulation of homologue interactions is conserved in mammals

Meiotic Chromosome Pairing Is Promoted by Telomere-Led Chromosome Movements Independent of Bouquet Formation

Chromosome pairing in meiotic prophase is a prerequisite for the high fidelity of chromosome segregation that haploidizes the genome prior to gamete formation. In the budding yeast Saccharomyces cerevisiae, as in most multicellular eukaryotes, homologous pairing at the cytological level reflects the contemporaneous search for homology at the molecular level, where DNA double-strand broken ends find and interact with templates for repair on homologous chromosomes. Synapsis (synaptonemal complex formation) stabilizes pairing and supports DNA repair. The bouquet stage, where telomeres have formed a transient single cluster early in meiotic prophase, and telomere-promoted rapid meiotic prophase chromosome movements (RPMs) are prominent temporal correlates of pairing and synapsis. The bouquet has long been thought to contribute to the kinetics of pairing, but the individual roles of bouquet and RPMs are difficult to assess because of common dependencies. For example, in budding yeast RPMs and bouquet both require the broadly conserved SUN protein Mps3 as well as Ndj1 and Csm4, which link telomeres to the cytoskeleton through the intact nuclear envelope. We find that mutants in these genes provide a graded series of RPM activity: wild-type>mps3-dCC>mps3-dAR>ndj1Δ>mps3-dNT = csm4Δ. Pairing rates are directly correlated with RPM activity even though only wild-type forms a bouquet, suggesting that RPMs promote homologous pairing directly while the bouquet plays at most a minor role in Saccharomyces cerevisiae. A new collision trap assay demonstrates that RPMs generate homologous and heterologous chromosome collisions in or before the earliest stages of prophase, suggesting that RPMs contribute to pairing by stirring the nuclear contents to aid the recombination-mediated homology search

Postdigital Dialogue

This article is a multi-authored experimental postdigital dialogue about postdigital dialogue. Fourteen authors were invited to produce their sections, followed by two author-reviewers who examined the article as a whole. Authors were invited to reflect on Petar Jandric’s book Learning in the age of digital reason (2017) or to produce completely new insights. The article also contains a summary of book symposium on Learning in the age of digital reason held at the 2017 American Educational Research Conference (AERA). The authors are tentatively confident that this article produces more knowledge than the arithmetic sum of its constituent parts. However, they are also very aware of its limits and insist that their conclusions are not consensual or homogenous. As traditional forms of research increasingly fail to describe our current reality, they present this article as an experiment and a possible starting point for developing new dialogical research approaches fit for our postdigital reality