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BMC Genetics

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https://www.readbyqxmd.com/read/28201988/molecular-characterization-of-mhc-class-iib-genes-of-sympatric-neotropical-cichlids
#1
Melinda J Hofmann, Seraina E Bracamonte, Christophe Eizaguirre, Marta Barluenga
BACKGROUND: The Major Histocompatibility Complex (MHC) is a key component of the adaptive immune system of all vertebrates and consists of the most polymorphic genes known to date. Due to this complexity, however, MHC remains to be characterized in many species including any Neotropical cichlid fish. Neotropical crater lake cichlids are ideal models to study evolutionary processes as they display one of the most convincing examples of sympatric and repeated parallel radiation events within and among isolated crater lakes...
February 15, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28201981/identification-of-effector-like-proteins-in-trichoderma-spp-and-role-of-a-hydrophobin-in-the-plant-fungus-interaction-and-mycoparasitism
#2
Paulina Guzmán-Guzmán, Mario Iván Alemán-Duarte, Luis Delaye, Alfredo Herrera-Estrella, Vianey Olmedo-Monfil
BACKGROUND: Trichoderma spp. can establish beneficial interactions with plants by promoting plant growth and defense systems, as well as, antagonizing fungal phytopathogens in mycoparasitic interactions. Such interactions depend on signal exchange between both participants and can be mediated by effector proteins that alter the host cell structure and function, allowing the establishment of the relationship. The main purpose of this work was to identify, using computational methods, candidates of effector proteins from T...
February 15, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28193154/opportunities-and-challenges-of-whole-genome-and-exome-sequencing
#3
REVIEW
Britt-Sabina Petersen, Broder Fredrich, Marc P Hoeppner, David Ellinghaus, Andre Franke
Recent advances in the development of sequencing technologies provide researchers with unprecedented possibilities for genetic analyses. In this review, we will discuss the history of genetic studies and the progress driven by next-generation sequencing (NGS), using complex inflammatory bowel diseases as an example. We focus on the opportunities, but also challenges that researchers are facing when working with NGS data to unravel the genetic causes underlying diseases.
February 14, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28193157/whole-genome-association-analysis-of-pork-meat-ph-revealed-three-significant-regions-and-several-potential-genes-in-finnish-yorkshire-pigs
#4
Lucas L Verardo, Marja-Liisa Sevón-Aimonen, Timo Serenius, Ville Hietakangas, Pekka Uimari
BACKGROUND: One of the most commonly used quality measurements of pork is pH measured 24 h after slaughter. The most probable mode of inheritance for this trait is oligogenic with several known major genes, such as PRKAG3. In this study, we used whole-genome SNP genotypes of over 700 AI boars; after a quality check, 42,385 SNPs remained for association analysis. All the boars were purebred Finnish Yorkshire. To account for relatedness of the animals, a pedigree-based relationship matrix was used in a mixed linear model to test the effect of SNPs on pH measured from loin...
February 13, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28187701/erratum-to-a-genome-wide-assessment-of-genetic-diversity-and-population-structure-of-korean-native-cattle-breeds
#5
Aditi Sharma, Seung-Hwan Lee, Dajeong Lim, Han-Ha Chai, Bong-Hwan Choi, Yongmin Cho
No abstract text is available yet for this article.
February 10, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28183280/whole-genome-scan-reveals-the-genetic-signature-of-african-ankole-cattle-breed-and-potential-for-higher-quality-beef
#6
Mengistie Taye, Jaemin Kim, Sook Hee Yoon, Wonseok Lee, Olivier Hanotte, Tadelle Dessie, Stephen Kemp, Okeyo Ally Mwai, Kelsey Caetano-Anolles, Seoae Cho, Sung Jong Oh, Hak-Kyo Lee, Heebal Kim
BACKGROUND: Africa is home to numerous cattle breeds whose diversity has been shaped by subtle combinations of human and natural selection. African Sanga cattle are an intermediate type of cattle resulting from interbreeding between Bos taurus and Bos indicus subspecies. Recently, research has asserted the potential of Sanga breeds for commercial beef production with better meat quality as compared to Bos indicus breeds. Here, we identified meat quality related gene regions that are positively selected in Ankole (Sanga) cattle breeds as compared to indicus (Boran, Ogaden, and Kenana) breeds using cross-population (XP-EHH and XP-CLR) statistical methods...
February 9, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28166717/protanopia-red-color-blindness-in-medaka-a-simple-system-for-producing-color-blind-fish-and-testing-their-spectral-sensitivity
#7
Noriko Homma, Yumi Harada, Tamaki Uchikawa, Yasuhiro Kamei, Shoji Fukamachi
BACKGROUND: Color perception is important for fish to survive and reproduce in nature. Visual pigments in the retinal photoreceptor cells are responsible for receiving light stimuli, but the function of the pigments in vivo has not been directly investigated in many animals due to the lack of color-blind lines and appropriate color-perception tests. METHODS: In this study, we established a system for producing color-blind fish and testing their spectral sensitivity...
February 6, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28148224/erratum-to-diagnosis-implications-of-the-whole-genome-sequencing-in-a-large-lebanese-family-with-hyaline-fibromatosis-syndrome
#8
Zahraa Haidar, Ramzi Temanni, Eliane Chouery, Puthen Jithesh, Wei Liu, Rashid Al-Ali, Ena Wang, Francesco M Marincola, Nadine Jalkh, Soha Haddad, Wassim Haidar, Lotfi Chouchane, André Mégarbané
No abstract text is available yet for this article.
February 1, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28143391/adam23-is-a-common-risk-gene-for-canine-idiopathic-epilepsy
#9
Lotta L E Koskinen, Eija H Seppälä, Jutta Weissl, Tarja S Jokinen, Ranno Viitmaa, Reetta L Hänninen, Pascale Quignon, Andrea Fischer, Catherine André, Hannes Lohi
BACKGROUND: Idiopathic or genetic adult-onset epilepsy is a common neurological disorder in domestic dogs. Genetic association has been reported only with ADAM23 on CFA 37 in few breeds. To identify novel epilepsy genes, we performed genome-wide association (GWA) analyses in four new breeds, and investigated the association of the previously reported ADAM23 haplotype with the epilepsy phenotype in eight breeds. RESULTS: GWA analysis did not reveal new epilepsy loci...
January 31, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28122512/prediction-of-genomic-breeding-values-for-growth-carcass-and-meat-quality-traits-in-a-multi-breed-sheep-population-using-a-hd-snp-chip
#10
Luiz F Brito, Shannon M Clarke, John C McEwan, Stephen P Miller, Natalie K Pickering, Wendy E Bain, Ken G Dodds, Mehdi Sargolzaei, Flávio S Schenkel
BACKGROUND: New Zealand has some unique Terminal Sire composite sheep breeds, which were developed in the last three decades to meet commercial needs. These composite breeds were developed based on crossing various Terminal Sire and Maternal breeds and, therefore, present high genetic diversity compared to other sheep breeds. Their breeding programs are focused on improving carcass and meat quality traits. There is an interest from the industry to implement genomic selection in this population to increase the rates of genetic gain...
January 26, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28109261/genetic-diversity-extent-of-linkage-disequilibrium-and-persistence-of-gametic-phase-in-canadian-pigs
#11
Daniela A Grossi, Mohsen Jafarikia, Luiz F Brito, Marcos E Buzanskas, Mehdi Sargolzaei, Flávio S Schenkel
BACKGROUND: Knowledge on the levels of linkage disequilibrium (LD) across the genome, persistence of gametic phase between breed pairs, genetic diversity and population structure are important parameters for the successful implementation of genomic selection. Therefore, the objectives of this study were to investigate these parameters in order to assess the feasibility of a multi-herd and multi-breed training population for genomic selection in important purebred and crossbred pig populations in Canada...
January 21, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28103813/fat-mass-and-obesity-associated-fto-gene-influences-skeletal-muscle-phenotypes-in-non-resistance-trained-males-and-elite-rugby-playing-position
#12
S M Heffernan, G K Stebbings, L P Kilduff, R M Erskine, S H Day, C I Morse, J S McPhee, C J Cook, B Vance, W J Ribbans, S M Raleigh, C Roberts, M A Bennett, G Wang, M Collins, Y P Pitsiladis, A G Williams
BACKGROUND: FTO gene variants have been associated with obesity phenotypes in sedentary and obese populations, but rarely with skeletal muscle and elite athlete phenotypes. METHODS: In 1089 participants, comprising 530 elite rugby athletes and 559 non-athletes, DNA was collected and genotyped for the FTO rs9939609 variant using real-time PCR. In a subgroup of non-resistance trained individuals (NT; n = 120), we also assessed structural and functional skeletal muscle phenotypes using dual energy x-ray absorptiometry, ultrasound and isokinetic dynamometry...
January 19, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28103792/diagnosis-implications-of-the-whole-genome-sequencing-in-a-large-lebanese-family-with-hyaline-fibromatosis-syndrome
#13
Zahraa Haidar, Ramzi Temanni, Eliane Chouery, Puthen Jitesh, Wei Liu, Rashid Al-Ali, Ena Wang, Francesco M Marincola, Nadine Jalkh, Soha Haddad, Wassim Haidar, Lotfi Chouchane, André Mégarbané
BACKGROUND: Hyaline fibromatosis syndrome (HFS) is a recently introduced alternative term for two disorders that were previously known as juvenile hyaline fibromatosis (JHF) and infantile systemic hyalinosis (ISH). These two variants are secondary to mutations in the anthrax toxin receptor 2 gene (ANTXR2) located on chromosome 4q21. The main clinical features of both entities include papular and/or nodular skin lesions, gingival hyperplasia, joint contractures and osteolytic bone lesions that appear in the first few years of life, and the syndrome typically progresses with the appearance of new lesions...
January 19, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28103790/microrna-146a-rs2910164-is-associated-with-severe-preeclampsia-in-black-south-african-women-on-haart
#14
Niren Ray Maharaj, Prithiksha Ramkaran, Siddharthiya Pillay, Anil Amichund Chuturgoon
BACKGROUND: South African (SA) Black women have a high prevalence of preeclampsia and HIV, both conditions associated with increased inflammation. miR-146a is an inflammatory-associated miR and a common single nucleotide polymorphism (rs2910164) has been associated with several disease conditions. To date, this SNP has not been investigated in SA Black women. We therefore aimed to investigate the miR-146a G > C SNP in SA Blacks with preeclampsia, and further examine possible association among preeclamptic (PE) women with HIV infection on HAART...
January 19, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28100165/genomic-predictions-for-economically-important-traits-in-brazilian-braford-and-hereford-beef-cattle-using-true-and-imputed-genotypes
#15
Mario L Piccoli, Luiz F Brito, José Braccini, Fernando F Cardoso, Mehdi Sargolzaei, Flávio S Schenkel
BACKGROUND: Genomic selection (GS) has played an important role in cattle breeding programs. However, genotyping prices are still a challenge for implementation of GS in beef cattle and there is still a lack of information about the use of low-density Single Nucleotide Polymorphisms (SNP) chip panels for genomic predictions in breeds such as Brazilian Braford and Hereford. Therefore, this study investigated the effect of using imputed genotypes in the accuracy of genomic predictions for twenty economically important traits in Brazilian Braford and Hereford beef cattle...
January 18, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28056775/genetic-effects-and-genotype%C3%A2-%C3%A3-%C3%A2-environment-interactions-govern-seed-oil-content-in-brassica-napus-l
#16
Yanli Guo, Ping Si, Nan Wang, Jing Wen, Bin Yi, Chaozhi Ma, Jinxing Tu, Jitao Zou, Tingdong Fu, Jinxiong Shen
BACKGROUND: As seed oil content (OC) is a key measure of rapeseed quality, better understanding the genetic basis of OC would greatly facilitate the breeding of high-oil cultivars. Here, we investigated the components of genetic effects and genotype × environment interactions (GE) that govern OC using a full diallel set of nine parents, which represented a wide range of the Chinese rapeseed cultivars and pure lines with various OCs. RESULTS: Our results from an embryo-cytoplasm-maternal (GoCGm) model for diploid seeds showed that OC was primarily determined by genetic effects (VG) and GE (VGE), which together accounted for 86...
January 5, 2017: BMC Genetics
https://www.readbyqxmd.com/read/28105937/effect-of-lentivirus-mediated-shrna-inactivation-of-hk1-hk2-and-hk3-genes-in-colorectal-cancer-and-melanoma-cells
#17
Anna V Kudryavtseva, Maria S Fedorova, Alex Zhavoronkov, Alexey A Moskalev, Alexander S Zasedatelev, Alexey A Dmitriev, Asiya F Sadritdinova, Irina Y Karpova, Kirill M Nyushko, Dmitry V Kalinin, Nadezhda N Volchenko, Nataliya V Melnikova, Kseniya M Klimina, Dmitry V Sidorov, Anatoly Y Popov, Tatiana V Nasedkina, Andrey D Kaprin, Boris Y Alekseev, George S Krasnov, Anastasiya V Snezhkina
BACKGROUND: The switch from oxidative phosphorylation to glycolysis in proliferating cancer cells, even under aerobic conditions, has been shown first in 1926 by Otto Warburg. Today this phenomenon is known as the "Warburg effect" and recognized as a hallmark of cancer. The metabolic shift to glycolysis is associated with the alterations in signaling pathways involved in energy metabolism, including glucose uptake and fermentation, and regulation of mitochondrial functions. Hexokinases (HKs), which catalyze the first step of glycolysis, have been identified to play a role in tumorigenesis of human colorectal cancer (CRC) and melanoma...
December 22, 2016: BMC Genetics
https://www.readbyqxmd.com/read/28105935/computational-models-in-genetics-at-bgrs-sb-2016-introductory-note
#18
EDITORIAL
Yuriy L Orlov, Ancha V Baranova, Arcady L Markel
No abstract text is available yet for this article.
December 22, 2016: BMC Genetics
https://www.readbyqxmd.com/read/28105933/haploid-yeast-cells-undergo-a-reversible-phenotypic-switch-associated-with-chromosome-ii-copy-number
#19
Polina Drozdova, Ludmila Mironova, Galina Zhouravleva
BACKGROUND: SUP35 and SUP45 are essential genes encoding polypeptide chain release factors. However, mutants for these genes may be viable but display pleiotropic phenotypes which include, but are not limited to, nonsense suppressor phenotype due to translation termination defect. [PSI (+)] prion formation is another Sup35p-associated mechanism leading to nonsense suppression through decreased availability of functional Sup35p. [PSI (+)] differs from genuine sup35 mutations by the possibility of its elimination and subsequent re-induction...
December 22, 2016: BMC Genetics
https://www.readbyqxmd.com/read/28105932/genes-of-susceptibility-to-early-neurodegenerative-changes-in-the-rat-retina-and-brain-analysis-by-means-of-congenic-strains
#20
Elena E Korbolina, Anna A Zhdankina, Anzhela Zh Fursova, Oyuna S Kozhevnikova, Natalia G Kolosova
BACKGROUND: There has been considerable interest in discovery of the genetic architecture of complex traits, particularly age-related neurodegenerative disorders. To predict disease risk and to understand its genetic basis in humans, it is necessary to study animal models. Our previous research on the accelerated-senescence OXYS strain has revealed two quantitative trait loci (QTLs) on rat chromosome 1 that are associated with early cataract and/or retinopathy as well as with behavioral abnormalities...
December 22, 2016: BMC Genetics
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