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The mitogen-activated protein kinase 8 (MAPK8), resistin (RETN), 11 beta hydroxysteroid dehydrogenase isoform 1 (HSD11B1) and protein kinase B Akt2 (AKT2) genes are all genes known to affect insulin signalling and have been implicated in the progression of obesity and type 2 diabetes in humans. In this study, polymorphisms in the porcine diabetes related MAPK8, RETN, HSD11B1 and AKT2 genes were identified, mapped and their associations with phenotypic measurements in swine were analysed. Polymorphisms detected in the MAPK8, RETN and HSD11B1 loci were used to genotype a Berkshire-Yorkshire pig breed reference family. Using linkage analysis, RETN, HSD11B1 and MAPK8 genes were mapped to pig chromosomes 2, 9 and 14, respectively, while the AKT2 gene was physically mapped to pig chromosome 6q21. Results presented here suggest associations between the polymorphisms in the MAPK8, RETN and HSD11B1 genes with several phenotypic measurements, including fat deposition traits in the pig. Because these genes have been implicated in obesity and diabetes in humans, and this study suggests associations with fat related traits, further research on these genes in swine may provide useful information on genetic factors underlying lean pork production.

We have developed software, called Expeditor, that can be used to combine known gene structure information from human and coding sequence information from farm animal species for a streamlined primer design in target farm animal species. This software has many utilities, which include PCR-based SNP discovery for identification of genes/markers associated with economically important traits in farm animals, comparative mapping analysis, and evolution studies. The use of this software helps minimize tedious manual operations and reduces the chance of errors by more conventional approaches.

This paper reports the variation in five blood proteins from five populations of sheep found in Kenya. Blood samples were collected from a total of 309 adult sheep of both sexes in Kwale, Makueni and Kakamega districts for the fat-tailed sheep and in Isiolo district for the fat-rumped hair sheep. Fine-wooled Merino sheep were used in this study as the reference population. Transferrin, esterase-A and esterase-C were polymorphic in all the populations investigated, while albumin was monomorphic for the S allele in the fat-tailed sheep and haemoglobin was fixed for the B allele in the Kwale, Makueni and Isiolo populations. Phylogenies derived from the pairwise genetic distance estimates showed a clear separation between the indigenous sheep populations and the exotic Merino. However, the topology of the former showed rather poor consistency with their morphological classification based on the localization of their fat deposits, namely fat-tailed or fat-rumped hair sheep.

The American mink (Neovison vison) is an invasive species of mustelid, native to North America, first reported in Chiloé Island, Chile, in 2013. Due to the known threats of this exotic species on native and domestic fauna, as well as on humans (e.g., depredation and reservoir of diseases such as leptospirosis and COVID-19), great efforts have been made to control and eradicate their populations in Chiloé. Nonetheless, the genetic and epidemiological status of its current population is unknown. Here, we assessed genetic diversity, structure, and presence of Leptospira spp. in N. vison populations from Chiloé. To achieve this, we genotyped 61 individuals across 12 locations on the island and compared them to 30 individuals from 6 locations on the mainland using 12 microsatellite markers. High genetic diversity (He: 0.68), low genetic structure (FST: 0.021), high genetic flow (Nm: 7.43), and five shared genotypic groups were detected between continent and island mink populations. Although these results suggest multiple routes and origins of invasion from the continent to Chiloé, high migration rates detected between island and Pargua localities allow us to infer that a large number of individuals crossed the Chacao Channel. On the other hand, leptospirosis assays on 33 mink kidney samples using qPCR detected this pathogen with a prevalence of 18% in 42% of the localities sampled (6 individuals from 5 localities). We hope that this first population genetic and epidemiological report will be a useful tool for decision-making and the control of minks on Chiloé Island. [ABSTRACT FROM AUTHOR]

The present study investigated the biochemical polymorphism of hemoglobin (Hb) and its relationship with performance traits of Ethiopian indigenous and Sasso chicken breeds. A total of 284 chickens reared in three agro-ecologies were examined for genetic diversity and associations with productive traits at Hb locus using agarose gel electrophoresis. The results showed that the Hb A allele was dominant in both breeds, and a higher proportion of male chickens were Hb AA genotypes, while females were predominantly Hb BB types. In the highland agro-ecology, chickens with the Hb AA genotype were the most dominant, whereas in mid- and low-land agro-ecologies, chickens with Hb BB and Hb AB genotypes were found to be more frequent. A moderate level of expected heterozygosity was obtained with 0.47 and 0.445 for indigenous and Sasso chickens, respectively, with an average effective number of alleles per locus of 1.89 and 1.80. Moreover, chickens with Hb AA genotypes showed significantly (p ≤ 0.05) higher body weight and linear body measurements than those of Hb AB and Hb BB genotypes. However, for appendage body structures (comb and wattle dimensions), chickens with the Hb AB and Hb BB genotypes had higher mean values. Additionally, clutch size (14.2 ± 0.4), clutch length (21.8 ± 0.7), and eight-month egg production (84.1 ± 1.2) were significantly (p ≤ 0.05) higher for hens with Hb BB genotypes, followed by those with Hb AB -types. Therefore, the considerable hemoglobin variability and significant associations of Hb variants with the performance traits can be sought as guiding information for further genetic improvement interventions in the chicken breeds under investigation. Further microsatellite marker-based genotyping is recommended to validate the higher morphometric values for Hb AA genotypes and the better egg production for Hb BB and Hb AB genotypes., (© 2024. The Author(s), under exclusive licence to Springer Nature B.V.)

Background: Fat deposition is an important economic consideration in pig production. The amount of fat deposition in pigs seriously affects production efficiency, quality, and reproductive performance, while also affecting consumers' choice of pork. Weighted gene co-expression network analysis (WGCNA) is effective in pig genetic studies. Therefore, this study aimed to identify modules that co-express genes associated with fat deposition in pigs (Songliao black and Landrace breeds) with extreme levels of backfat (high and low) and to identify the core genes in each of these modules. Results: We used RNA sequences generated in different pig tissues to construct a gene expression matrix consisting of 12,862 genes from 36 samples. Eleven co-expression modules were identified using WGCNA and the number of genes in these modules ranged from 39 to 3,363. Four co-expression modules were significantly correlated with backfat thickness. A total of 16 genes (RAD9A, IGF2R, SCAP, TCAP, SMYD1, PFKM, DGAT1, GPS2, IGF1, MAPK8, FABP, FABP5, LEPR, UCP3, APOF, and FASN) were associated with fat deposition. Conclusions: RAD9A, TCAP, SMYD1, PFKM, GPS2, and APOF were the key genes in the four modules based on the degree of gene connectivity. Combining these results with those from differential gene analysis, SMYD1 and PFKM were proposed as strong candidate genes for body size traits. This study explored the key genes that regulate porcine fat deposition and lays the foundation for further research into the molecular regulatory mechanisms underlying porcine fat deposition. [ABSTRACT FROM AUTHOR]

Genetic testing using STR sequences is a fundamental element of investigative and judicial activities in various types of cases involving animals, such as theft of animals or products derived from them, pedigree scams, violation of animal rights, or claims for compensation for property damage or personal injury. The aim of the study was to develop a microsatellite panel for individual identification and determination of relatedness in American mink for the purposes of forensic veterinary expert opinions. In total, 82 alleles were identified in 13 analysed microsatellite loci. The suitability of the test sequences for individual identification was determined by calculating the power of discrimination (PD). Taking into account all individuals, the power of discrimination ranged from 0.622 to 0.892, which translated into a match probability (MP) of 6.36E-10 (occurrence of a given genotype in 1.57E+09). As a result of the research, an optimized microsatellite panel of 13 STR sequences was obtained, which could be a useful tool in forensic veterinary practice, in civil or criminal cases requiring determination of the relationship between animals of the species mink, or the implementation of identification tests such as comparative DNA analysis of live or dead individuals, preserved biological traces, or fur industry products. [ABSTRACT FROM AUTHOR]

American marten were extirpated from much of their native range in the northeastern United States as a result of land development and overharvesting before the mid-twentieth century. Based on occurrence records, recolonization in the late twentieth century was believed to have occurred via natural population expansion from two refugia: northern Maine and the eastern Adirondack Mountains of New York. Furthermore, a 1989-1991 reintroduction attempt in southern Vermont was originally declared unsuccessful, but marten have been rediscovered in southern Vermont since 2010. We used molecular techniques to resolve uncertain population histories and estimate contemporary levels of genetic variation and gene flow in marten populations in the northeastern United States. We sequenced a 320 bp segment of the control region (D-loop) of mtDNA in 112 individuals and amplified 10 microsatellite loci in 111 individuals. Five genetic clusters were identified in the northeastern United States based on the microsatellite data: (1) Maine, (2) New Hampshire, (3) eastern Adirondacks (New York), (4) western Adirondacks (New York), and (5) southern Vermont. Clustering and assignment tests suggest that individuals in southern Vermont are most likely to have originated in Maine—the primary source of the reintroduction. However, we were unable to rule out the possibility of a relict population in southern Vermont. Population expansion in New Hampshire appears to be the primary source of recolonization in northeastern Vermont. Additionally, dispersers from the reintroduction attempt may have spread to northeastern Vermont. Genetic diversity is lower in the entire northeastern United States than an interior population in Ontario, Canada. This study improves our understanding of population history in the northeastern United States. Relict populations of marten may have persisted through the nineteenth and twentieth centuries where they were believed to have been extirpated. Recognizing and conserving all of the distinct subsets of native genetic diversity in the region could promote long-term population health. [ABSTRACT FROM AUTHOR]

The aim of the study was to evaluate the occurrence and distribution of variations in blood protein markers in sheep breeds in Nigeria and to evaluate the relationships that exist among them. A total of 100 sheep comprising of twenty-five each of Balami, Uda, Yankassa and West African Dwarf (WAD) breeds were sampled for biochemical studies. Blood was collected to determine variations at the Albumin and Carbonic Anhydrase (CA) structural protein loci using cellulose acetate electrophoresis. All tested loci were polymorphic yielding four allelic variants (CAF, CAS, AlbA, and AlbB) at the two protein loci. Genetic variability in the studied population was accessed using heterozygosity (observed - Ho and expected - He), effective number of alleles (Ne), fixation index (F) and gene flow (Nm). Genotypic frequencies ranged from 0.01 to 0.62 for CA and 0.25 to 0.49 for Alb loci. Estimated heterozygosity values ranged from 0.32±0.28 at Balami sheep to 0.70±0.22 in WAD with a global average estimated at 0.43±0.09 for all the breeds studied. The gene flow values for each of the loci studied were 0.82 and 1.24 for Alb and CA, respectively, with an average value of 1.03. The results showed that Yankassa and Balami sheep populations are more genetically (Nei's genetic identify value - 0.99) alike compared to Yankassa and WAD (0.73). Based on the values of heterozygosity (mean He =0.70 and Ho =0.45) assessed by variation of albumin and carbonic anhydrase the most genetic diverse is WAD sheep breed among the studied populations. [ABSTRACT FROM AUTHOR]

Genetic individualization based on non-invasive sampling is crucial for estimating the numbers of individuals in endangered mammalian populations. In sable (Martes zibellina)-poaching cases, identifying the number of animals involved is critical for determining the penalty. In addition, investigating animal numbers for wild sable populations requires genetic individualization when collecting several samples in neighboring regions. Microsatellites have been demonstrated to be reliable markers for individual identification. Thirty-three microsatellite loci derived from Mustelidae were selected to develop a genetic individualization method for sable. Three reference populations containing 54 unrelated sables were used to calculate allele number, allelic frequencies, and the polymorphic information content of each locus. The data were subsequently used to assess the validity of a combination of twelve loci for sable individualization. We defined twelve polymorphic loci that were easy to be amplified and genotyped. Four significant deviations from Hardy-Weinberg equilibrium were observed among the 12 loci in the three populations. The match probability of an individual from the reference populations with a random individual based on the 12 loci was 1.37 × 10−13. Using the combination of the twelve loci provides sufficient power to individualize sables considering the levels of microsatellite polymorphism observed. These loci were successfully applied to a case of sable poaching and provided valid evidence to determine the penalty. The genetic individualization of sable based on these loci might also be useful to investigate the numbers of animals in wild populations. [ABSTRACT FROM AUTHOR]

Attempts to mitigate the impact of invasive species on native ecosystems increasingly target large land masses where control, rather than eradication, is the management objective. Depressing numbers of invasive species to a level where their impact on native biodiversity is tolerable requires overcoming the impact of compensatory immigration from non-controlled portions of the landscape. Because of the expected scale-dependency of dispersal, the overall size of invasive species management areas relative to the dispersal ability of the controlled species will determine the size of any effectively conserved core area unaffected by immigration from surrounding areas. However, when dispersal is male-biased, as in many mammalian invasive carnivores, males may be overrepresented amongst immigrants, reducing the potential growth rate of invasive species populations in re-invaded areas. Using data collected from a project that gradually imposed spatially comprehensive control on invasive American mink ( Neovison vison) over a 10,000 km area of NE Scotland, we show that mink captures were reduced to almost zero in 3 years, whilst there was a threefold increase in the proportion of male immigrants. Dispersal was often long distance and linking adjacent river catchments, asymptoting at 38 and 31 km for males and females respectively. Breeding and dispersal were spatially heterogeneous, with 40 % of river sections accounting for most captures of juvenile (85 %), adult female (65 %) and immigrant (57 %) mink. Concentrating control effort on such areas, so as to turn them into 'attractive dispersal sinks' could make a disproportionate contribution to the management of recurrent re-invasion of mainland invasive species management areas. [ABSTRACT FROM AUTHOR]

Eradication and population reductions are often used to mitigate the negative impacts of non-native invasive species on native biodiversity. However, monitoring the effectiveness of non-native species control programmes is necessary to evaluate the efficacy of these measures. Genetic monitoring could provide valuable insights into temporal changes in demographic, ecological, and evolutionary processes in invasive populations being subject to control programmes. Such programmes should cause a decrease in effective population size and/or in genetic diversity of the targeted non-native species and an increase in population genetic structuring over time. We used microsatellite DNA data from American mink (Neovison vison) to determine whether the removal of this predator on the Koster Islands archipelago and the nearby Swedish mainland affected genetic variation over six consecutive years of mink culling by trappers as part of a population control programme. We found that on Koster Islands allelic richness decreased (from on average 4.53 to 3.55), genetic structuring increased, and effective population size did not change. In contrast, the mink population from the Swedish coast showed no changes in genetic diversity or structure, suggesting the stability of this population over 6 years of culling. Effective population size did not change over time but was higher on the coast than on the islands across all years. Migration rates from the islands to the coast were almost two times higher than from the coast to the islands. Most migrants leaving the coast were localised on the southern edge of the archipelago, as expected from the direction of the sea current between the two sites. Genetic monitoring provided valuable information on temporal changes in the population of American mink suggesting that this approach can be used to evaluate and improve control programmes of invasive vertebrates. [ABSTRACT FROM AUTHOR]

In general, landscape genetic studies have ignored the potential role that the phenotype of individuals plays in determining fine-scale genetic structure in species. This potential over-simplification ignores an important component that dispersal is both condition- and phenotype-dependent. In order to investigate the relationship between potential dispersal, habitat selection and phenotype, we examined the spatial ecology, body mass and fine-scale genetic structure of weasels ( Mustela nivalis) in Białowieża Forest in Poland. Our study population is characterized by an almost three-fold phenotypic variation in adult body mass and weasels were segregated in certain habitats according to size. We detected significant genetic structuring associated with habitat within the studied area and analyses of radio-tracking and re-capture data showed that the maximum extent of movement was achieved by weasels of medium body size, whereas the smallest and largest individuals exhibited higher site fidelity. With the unrestricted movement of the medium-sized individuals across optimal habitat, genetic admixture does occur. However, the presence of a barrier leads to unidirectional gene flow, with larger individuals outcompeting smaller individuals and therefore maintaining the genetic break in the study area. This highlights the importance of considering both intrinsic (phenotype) and extrinsic (environmental) factors in understanding dispersal patterns and ultimately, gene flow in complex landscapes. [ABSTRACT FROM AUTHOR]

Body mass (BM) and resting metabolic rates (RMR) are two inexorably linked traits strongly related to mammalian life histories. Yet, there have been no studies attempting to estimate heritable variation and covariation of BM and RMR in natural populations. We used a marker-based approach to construct a pedigree and then the 'animal model' to estimate narrow sense heritability ( h2) of these traits in a free-living population of weasels Mustela nivalis-a small carnivore characterised by a wide range of BM and extremely high RMR. The most important factors affecting BM of weasels were sex and habitat type, whereas RMR was significantly affected only by seasonal variation of this trait. All environmental factors had only small effect on estimates of additive genetic variance of both BM and RMR. The amount of additive genetic variance associated with BM and estimates of heritability were high and significant in males ( h2 = 0.61), but low and not significant in females ( h2 = 0.32), probably due to small sample size for the latter sex. The results from the two-trait model revealed significant phenotypic (r P = 0.62) and genetic correlation (r A = 0.89) between BM and whole body RMR. The estimate of heritability of whole body RMR (0.54) and BM corrected RMR (0.45) were lower than estimates of heritability for BM. Both phenotypic and genetic correlations between BM corrected RMR and BM had negative signals (r P = −0.42 and r A = −0.58). Our results indicate that total energy expenditures of individuals can quickly evolve through concerted changes in BM and RMR. [ABSTRACT FROM AUTHOR]

Landscape heterogeneity can influence animal dispersal by causing a directional bias in dispersal rate, as certain landscape configurations might promote, impede, or prevent movement and gene flow. In forested landscapes, logging operations often contribute to heterogeneity that can reduce functional connectivity for some species. American martens ( Martes americana) are one such species, as they are considered specialists of late-seral coniferous forests. We assessed marten gene flow to test the hypothesis that habitat management has maintained landscape connectivity for martens in the managed forests of Ontario, Canada. We genotyped 653 martens at 12 microsatellite loci, sampled from 29 sites across Ontario. We expected that if forest management has an effect on marten gene flow, we would see a correlation between effective resistance, estimated by circuit theory, and genetic distance, estimated by population graphs. Although we found a positive relationship between effective resistance and genetic distance (Mantel r = 0.249, P < 0.001), marten gene flow was better described by isolation by Euclidean distance (Mantel r = 0.410, P < 0.001). Our results suggest that managed forests in Ontario are well connected for marten and neither impede nor promote marten gene flow at the provincial scale. [ABSTRACT FROM AUTHOR]

Robustness in farm animals was defined by Knap as ‘the ability to combine a high production potential with resilience to stressors, allowing for unproblematic expression of a high production potential in a wide variety of environmental conditions’. The importance of robustness-related traits in breeding objectives is progressively increasing towards the production of animals with a high production level in a wide range of climatic conditions and production systems, together with a high level of animal welfare. Current strategies to increase robustness include selection for ‘functional traits’, such as skeletal and cardiovascular integrity, disease resistance and mortality in various stages. It is also possible to use global evaluation of sensitivity to the environment (e.g. reaction norm analysis or canalization), but these techniques are difficult to implement in practice. The hypothalamic–pituitary–adrenocortical (HPA) axis is the most important stress-responsive neuroendocrine system. Cortisol (or corticosterone) released by the adrenal cortices exerts a large range of effects on metabolism, the immune system, inflammatory processes and brain function, for example. Large individual variations have been described in the HPA axis activity with important physiopathological consequences. In terms of animal production, higher cortisol levels have negative effects on growth rate and feed efficiency and increase the fat/lean ratio of carcasses. On the contrary, cortisol has positive effects on traits related to robustness and adaptation. For instance, newborn survival was shown to be directly related to plasma cortisol levels at birth, resistance to bacteria and parasites are increased in animals selected for a higher HPA axis response to stress, and tolerance to heat stress is better in those animals that are able to mount a strong stress response. Intense selection for lean tissue growth during the last decades has concomitantly reduced cortisol production, which may be responsible for the negative effects of selection on piglet survival. One strategy to improve robustness is to select animals with higher HPA axis activity. Several sources of genetic polymorphism have been described in the HPA axis. Hormone production by the adrenal cortices under stimulation by adrenocorticotropin hormone is a major source of individual differences. Several candidate genes have been identified by genomic studies and are currently under investigation. Bioavailability of hormones as well as receptor and post-receptor mechanisms are also subject to individual variation. Integration of these different sources of genetic variability will allow the development of a model for marker-assisted selection to improve animal robustness without negative side effects on production traits. [ABSTRACT FROM PUBLISHER]

Contents We carried out an SNP discovery project in pigs for candidate genes playing potentially important roles in embryonic development. Using eight pigs one each from eight breeds (Meishan, Mangalitza, Duroc, Pietrain, German Landrace, Hampshire, Husum Red Pied, German Large White), 36 SNPs were identified in intronic sequences of 21 porcine candidate genes based on sequencing of PCR products. The primer pairs were designed using porcine EST sequences allowing amplification of introns. These SNPs were tested for their association with the number of piglets born alive in German Large White sows using a discordant approach. Significant effects (p < 0.001 and p < 0.05, respectively) of intronic SNPs on litter size were found for four genes: mitogen-activated protein kinase kinase kinase 3 ( MAP3K3), vascular endothelial growth factor receptor ( KDR), erbb2 interacting protein ( ERBB2IP) and peroxisome proliferator-activated receptor delta ( PPARD). These SNPs can be further tested in upcoming association studies for their influence on litter size in different breeds using larger sample sizes. [ABSTRACT FROM AUTHOR]

We investigated the feasibility of using genetic techniques to census pine marten ( Martes martes) populations by genotyping non-invasively collected samples (plucked hair and scats), with particular reference to the genetically depauperate Irish population. Novel real-time polymerase chain reaction methods were developed for species and sex identification, targeting short DNA sequences. Background genetic variation at 17 microsatellite loci was very low in the Irish population, with an average of 2.29 alleles per locus and expected heterozygosity of 0.35. Despite such low polymorphism, a panel of eight loci with a sibling probability of identity of 0.011 reliably identified individual pine marten and their gender, as determined by reference to genotypes of live trapped individuals. With high nuclear DNA amplification success rates (93.8%) and low genotyping error rates (1.8%), plucked hairs may represent a more reliable and cost-effective DNA source than scats for monitoring populations of this elusive carnivore, and similar taxa such as the sympatric stone marten Martes foina. [ABSTRACT FROM AUTHOR]

To be effective, management programmes geared towards halting or reversing the spread of invasive species must focus on defined and defensible areas. This requires knowledge of the dispersal of non-native species targeted for control to better understand invasion and recolonisation scenarios. We investigated the genetic structure of invasive American mink ( Neovison vison) in Scotland, and incorporated landscape genetic approaches to examine resultant patterns in relation to geographical features that may influence dispersal. Populations of mink sampled from 10 sites in two regions (Argyll and Northeast Scotland) show a distinct genetic structure. First, the majority of pairwise population comparisons yielded FST values that were significantly greater than zero. Second,amova revealed that most of the genetic variance was attributable to differences among regions. Assignment tests placed 89 or more of individuals into their sampled region. Bayesian clustering methods grouped samples into two clusters according to their region of origin. Wombling approach identified the Cairngorms Mountains as a major impediment to gene flow between the regions. Mantel pairwise correlations between genetic and geographical distances estimated as least-cost distance assuming a linear increase in the cost of movement with increasing elevation were higher than Euclidean distances or distance along waterways. Spatial autocorrelation analyses revealed stronger spatial structuring for females than for males. These results suggest that gene flow by American mink is restricted by landscape features (mountain ranges) and that eradication attempt should in the first instance break down the connectivity between management units separated by mountains. [ABSTRACT FROM AUTHOR]

Background: Haemophilus parasuis (HPS) is an important swine pathogen that causes Glässer's disease, which is characterized by fibrinous polyserositis, meningitis and arthritis. The molecular mechanisms that underlie the pathogenesis of the disease remain poorly understood, particularly the resistance of porcine immune system to HPS invasion. In this study, we investigated the global changes in gene expression in the spleen following HPS infection using the Affymetrix Porcine Genechip™. Results: A total of 931 differentially expressed (DE) transcripts were identified in the porcine spleen 7 days after HPS infection; of these, 92 unique genes showed differential expression patterns based on analysis using BLASTX and Gene Ontology. The DE genes involved in the immune response included genes for inflammasomes (RETN, S100A8, S100A9, S100A12), adhesion molecules (CLDN3, CSPG2, CD44, LGALS8), transcription factors (ZBTB16, SLC39A14, CEBPD, CEBPB), acute-phase proteins and complement (SAA1, LTF, HP, C3), differentiation genes for epithelial cells and keratinocytes (TGM1, MS4A8B, CSTA), and genes related to antigen processing and presentation (HLA-B, HLA-DRB1). Further immunostimulation analyses indicated that mRNA levels of S100A8, S100A9, and S100A12 in porcine PK-15 cells increased within 48 h and were sustained after administration of lipopolysaccharide (LPS) and Poly(I:C) respectively. In addition, mapping of DE genes to porcine health traits QTL regions showed that 70 genes were distributed in 7 different known porcine QTL regions. Finally, 10 DE genes were validated by quantitative PCR. Conclusion: Our findings demonstrate previously unrecognized changes in gene transcription that are associated with HPS infection in vivo, and many potential cascades identified in the study clearly merit further investigation. Our data provide new clues to the nature of the immune response in mammals, and we have identified candidate genes that are related to resistance to HPS. [ABSTRACT FROM AUTHOR]

Background: Microsatellite (simple sequence repeat -- SSR) and single nucleotide polymorphism (SNP) markers are two types of important genetic markers useful in genetic mapping and genotyping. Often, large-scale genomic research projects require high-throughput computer-assisted primer design. Numerous such web-based or standard-alone programs for PCR primer design are available but vary in quality and functionality. In particular, most programs lack batch primer design capability. Such a high-throughput software tool for designing SSR flanking primers and SNP genotyping primers is increasingly demanded. Results: A new web primer design program, BatchPrimer3, is developed based on Primer3. BatchPrimer3 adopted the Primer3 core program as a major primer design engine to choose the best primer pairs. A new scorebased primer picking module is incorporated into BatchPrimer3 and used to pick position-restricted primers. BatchPrimer3 v1.0 implements several types of primer designs including generic primers, SSR primers together with SSR detection, and SNP genotyping primers (including single-base extension primers, allele-specific primers, and tetra-primers for tetra-primer ARMS PCR), as well as DNA sequencing primers. DNA sequences in FASTA format can be batch read into the program. The basic information of input sequences, as a reference of parameter setting of primer design, can be obtained by pre-analysis of sequences. The input sequences can be pre-processed and masked to exclude and/or include specific regions, or set targets for different primer design purposes as in Primer3Web and primer3Plus. A tab-delimited or Excel-formatted primer output also greatly facilitates the subsequent primer-ordering process. Thousands of primers, including wheat conserved intron-flanking primers, wheat genome-specific SNP genotyping primers, and Brachypodium SSR flanking primers in several genome projects have been designed using the program and validated in several laboratories. Conclusion: BatchPrimer3 is a comprehensive web primer design program to develop different types of primers in a high-throughput manner. Additional methods of primer design can be easily integrated into future versions of BatchPrimer3. The program with source code and thousands of PCR and sequencing primers designed for wheat and Brachypodium are accessible at http://wheat.pw.usda.gov/demos/BatchPrimer3/. [ABSTRACT FROM AUTHOR]

Abstract  Multiplex Polymerase chain reaction (PCR) is the term used when more than one pair of primers is used in a polymerase chain reaction. The goal of multiplex PCR is to amplify several segments of target DNA simultaneously and thereby to conserve template DNA, save time, and minimize expense. The success of the experiment is dependent on primer design. However, this can be a dreary task as there are many constrains such as melting temperatures, primer length, GC content and complementarity that need to be optimized to obtain a good PCR product. In our investigations, we found few primer design tools for multiplex PCR and there was no suitable tool for our partners who want to use a multiplex PCR genotypic assay. The tool draws on a genetic algorithm where stochastic approaches based on the concept of biological evolution, biological genetics and genetic operations on chromosomes are used to find an optimal solution for multiplex PCR. The presented experimental results indicate that the proposed algorithm is able to find a set of primer pairs that not only obey the design properties but also work in the same tube. [ABSTRACT FROM AUTHOR]

A pro-inflammatory cytokine, interleukin 18 (IL-18), induces intracellular expression of IL-1 and the release of IL-6. IL-1 and IL-6 has been detected in anterior pituitary cells, suggesting that IL-18 is produced in anterior pituitary cells and may serve to aid immuno-endocrine regulation. In the present study, we addressed this hypothesis by investigating the intracellular localization of IL-18 and its receptor in bovine anterior pituitary gland. IL-18 mRNA and its protein were detected in the anterior pituitary gland by RT-PCR and Western blotting. In situ hybridization showed that IL-18 mRNA was expressed in the anterior pituitary cells. Immunohistochemistry of IL-18 and specific hormones revealed the presence of IL-18 in somatotrophs. Furthermore, the expression of GH mRNA in IL-18 immunoreactive cells was confirmed by immuno-laser microdissection. These results first demonstrated that somatotrophs produced IL-18. Subsequently, the distribution of the IL-18 receptor alpha (IL-18Rα) was investigated in order to understand IL-18 signaling among the anterior pituitary cells. Bovine IL-18Rα cDNA was partially sequenced and detected in the anterior pituitary gland by RT-PCR. Immunohistochemistry of IL-18Rα, IL-18 and GH showed that IL-18Rα was co-localized in IL-18 immunoreactive cells or somatotrophs. These data suggest that IL-18 acts on somatotrophs as an immuno-endocrine mediator through the autocrine pathway. [ABSTRACT FROM AUTHOR]

The article examines the implications adipokines for female fertility and obesity. Obesity is associated with a diverse set of metabolic disorders and has reproductive consequences that are complex. The adipose tissue-produced leptin influences the developing embryo, the functioning of the ovary and the endometrium, interacts with the release and activity of gonadotrophins and the hormones that control their synthesis.

Introduction: Adolescent pregnancy is a highly prevalent and significant public health problem in Kenya, and mental health needs of pregnant adolescent girls have been overlooked. Nearly, 50% of the world's population comprises children and adolescents and 85% live in lower and middle-income countries. Objective: Pregnant adolescents were interviewed to ascertain certain social determinants of mental health such as social support, partner or parent support, and demographic profile and assessed for depression using EPDS and for severity of depression using BDI, and their alcohol abuse assessed using AUDIT. Methods: A cross-sectional descriptive study using a purposive sample of 212 pregnant adolescents visiting Kangemi Health Centre in Nairobi was conducted. Results: We found that 60.4% had depressive symptoms scores of 8 and above on EPDS, 51.9% were found to have severe depression score on BDI. About 26.9% were currently consuming alcohol. The more severely depressed participants were demonstrating greater alcohol use. Of the 110 pregnant adolescents who were severely depressed, 39 were currently consuming alcohol. We identified several alcohol use disorder factors associated with depression such as living with an alcoholic, ever and current use of alcohol, alcohol-related harm being experienced, being pressured to take alcohol. On our final multivariate logistic regression, we found that being a student (AOR 5.12, 95% CI 1.19–22.0, P = 0.028); low family income (between 5000 and 10,000 shillings) (AOR 0.22, 95% CI 0.09–0.56, P = 0.02); unplanned pregnancy (AOR 3.41, 95% CI 1.19–9.80, P = 0.023); both negative and ambivalent attitudes of the unborn baby's father, respectively (AOR 8.72 95% CI 2.88–26.37 P < 0.001; AOR 4.26 95% CI 1.35–13.45, P = 0.013); early age at sexual debut (AOR 0.70, 95% CI 0.55–0.89, P = 0.003); and ever used any psychoactive substances (AOR 3.21, 95% CI 1.31–7.88, P = 0.011). Conclusion and recommendations: Alcohol abuse during pregnancy presents a significant public health burden and the associated health risks for the adolescent mother and her baby are enormous. We need to bolster screening for the comorbid disorders such as depression and substance use disorders, particularly alcohol in order to address mental health and psychosocial functioning of adolescents. The underlying adversities and sociocultural challenges need to be better understood and mechanisms that lead to comorbidities require further research. Depression interventions for Kenyan adolescents would need to embed screening, treatment and management of substance abuse. [ABSTRACT FROM AUTHOR]

Background: Adolescent pregnancies within urban resource-deprived settlements predispose young girls to adverse mental health and psychosocial adversities, notably depression. Depression in sub-Saharan Africa is a leading contributor to years lived with disability (YLD). The study's objective was to determine the prevalence of depression and related psychosocial risks among pregnant adolescents reporting at a maternal and child health clinic in Nairobi, Kenya. Methods: A convenient sample of 176 pregnant adolescents attending antenatal clinic in Kangemi primary healthcare health facility participated in the study. We used PHQ-9 to assess prevalence of depression. Hierarchical multivariate linear regression was performed to determine the independent predictors of depression from the psychosocial factors that were significantly associated with depression at the univariate analyses. Results: Of the 176 pregnant adolescents between ages 15-18 years sampled in the study, 32.9% (n = 58) tested positive for a depression diagnosis using PHQ-9 using a cut-off score of 15+. However on multivariate linear regression, after various iterations, when individual predictors using standardized beta scores were examined, having experienced a stressful life event (B = 3.27, P = 0.001, β =0.25) explained the most variance in the care giver burden, followed by absence of social support for pregnant adolescents (B = − 2.76, P = 0.008, β = − 0.19), being diagnosed with HIV/AIDS (B = 3.81, P = 0.004, β =0.17) and being young (B = 2.46, P = 0.038, β =0.14). Conclusion: Depression is common among pregnant adolescents in urban resource-deprived areas of Kenya and is correlated with well-documented risk factors such as being of a younger age and being HIV positive. Interventions aimed at reducing or preventing depression in this population should target these groups and provide support to those experiencing greatest stress. [ABSTRACT FROM AUTHOR]