Cytological and genetic characterisation of dominant GMS line Shaan-GMS in Brassica napus L.
Abstract Genic male sterility (GMS) is an effective pollination control system applied in the hybrid breeding of Brassica napus L. Shaan-GMS is a spontaneous mutant of dominant GMS in B. napus. In this research, anther abortion in the homozygous two-type line 9A15AB derived from Shaan-GMS was characterised with the combined use of light microscopy and transmission electron microscopy. Results indicated that the most striking differences between the fertile and sterile plants occurred in the tapetum in the early microsporocyte stage. In sterile plants, the tapetal cells were irregularly arranged, multi-layered and ...
Source: J Appl Genet - July 26, 2020 Category: Genetics & Stem Cells Authors: Zhang X, Chen H, Zhang Q, Zhang Y, Xiao Z, Guo Y, Yu F, Hu S Tags: J Appl Genet Source Type: research

Genome-wide identification, genomic organization and expression profiles of SlARR-B gene family in tomato.
This study sets a good foundation for further characterization of the SlARR-B transcription factors in plant development and abiotic stress responses of tomato. PMID: 32666420 [PubMed - as supplied by publisher] (Source: J Appl Genet)
Source: J Appl Genet - July 14, 2020 Category: Genetics & Stem Cells Authors: Wang J, Xia J, Song Q, Liao X, Gao Y, Zheng F, Yang C Tags: J Appl Genet Source Type: research

GWAS and gene networks for milk-related traits from test-day multiple lactations in Portuguese Holstein cattle.
In conclusion, potential candidate genes (TRNAG-CCC, MAPK10, and PTPN3) associated with somatic cell were highlighted, which further validation studies are needed to clarify its mechanism action in response to mastitis. Moreover, most of the candidate genes identified were present in both (LAC3 and LAC1) for milk, fat and protein yields, except for SCS, in which no candidate genes were shared between LAC3 and LAC1. The larger phenotypic information provided by LAC3 dataset was more effective to identify relevant genes, providing a better understanding of the genetic architecture of these traits over all lactations simultan...
Source: J Appl Genet - July 1, 2020 Category: Genetics & Stem Cells Authors: Silva AA, Silva DA, Silva FF, Costa CN, Silva HT, Lopes PS, Veroneze R, Thompson G, Carvalheira J Tags: J Appl Genet Source Type: research

Use of multivariate factor analysis of detailed milk fatty acid profile to perform a genome-wide association study in Italian Simmental and Italian Holstein.
Abstract Milk fatty acid (FA) profile is a clear example of complex and multiple correlated traits whose genetic basis is difficult to assess. Although genome-wide association (GWA) studies have been successful in the identification of significant genetic variants for complex traits, when correlated phenotypes are analysed separately, the outcomes are difficult to compare and interpret in a metabolic context. Here, we performed a multivariate factor analysis (MFA) on Italian Simmental and Italian Holstein milk fat profiles to extract latent unobserved factors able to explain correlation structure and common metabo...
Source: J Appl Genet - June 23, 2020 Category: Genetics & Stem Cells Authors: Palombo V, Conte G, Mele M, Macciotta NPP, Stefanon B, Marsan PA, D'Andrea M Tags: J Appl Genet Source Type: research

Differential expression of lung adenocarcinoma transcriptome with signature of tobacco exposure.
Abstract Smoking accounts for almost 80-90% of lung cancer cases, which is also the most frequent cause of cancer-related deaths in humans. With over 60 carcinogens in tobacco smoke, cells dividing at the time of carcinogen exposure are at particular risk of neoplasia. The present study aimed to investigate global gene expression differences in lung adenocarcinoma (LUAD) tumour samples of current smokers and non-smokers, in an attempt to elucidate biological mechanisms underlying divergent smoking effects. Current and non-smoker tumour samples were analysed using bioinformatics tools, examining differences in mole...
Source: J Appl Genet - June 20, 2020 Category: Genetics & Stem Cells Authors: Hammouz RY, Kostanek JK, Dudzisz A, Witas P, Orzechowska M, Bednarek AK Tags: J Appl Genet Source Type: research

De novo transcriptome of the whole-body of the gastropod mollusk Philomycus bilineatus, a pest with medical potential in China.
Abstract Philomycus bilineatus is a highly common gastropod mollusk pest in China and is also utilized to treat infectious diseases. However, no genomic resources are available for this non-model species. In the present study, the transcriptomic analysis of P. bilineatus was completed. After sequencing using the next generation sequencing technology, 9.11 Gb of clean reads were obtained, which led to the assembly and annotation of 145,523 transcripts and 125,690 unigenes. Unigenes were functionally classified using Gene Ontology (GO), euKaryotic Ortholog Groups of proteins (KOG), and Kyoto Encyclopedia of Gen...
Source: J Appl Genet - June 18, 2020 Category: Genetics & Stem Cells Authors: Li Z, Yuan Y, Meng M, Hu P, Wang Y Tags: J Appl Genet Source Type: research

The genetic diversity of group-1 homoeologs and characterization of novel LMW-GS genes from Chinese Xinjiang winter wheat landraces (Triticum aestivum L.).
Abstract Group-1 homoelog genes in wheat genomes encode storage proteins and are the major determinants of wheat product properties. Consequently, understanding the genetic diversity of group-1 homoelogs and genes encoding storage proteins, especially the low-molecular-weight glutenins (LMW-GSs), within wheat landrace genomes is necessary to further improve the quality of modern wheat crops. The genetic diversity of group-1 homoelogs in 75 Xinjiang winter wheat landraces was evaluated by Diversity Arrays Technology (DArT) markers. These data were used to select 15 landraces for additional LMW-GS gene isolation. Th...
Source: J Appl Genet - June 16, 2020 Category: Genetics & Stem Cells Authors: Hu X, Dai S, Yan Y, Liu Y, Zhang J, Lu Z, Wei Y, Zheng Y, Cong H, Yan Z Tags: J Appl Genet Source Type: research

How far musicality and perfect pitch are derived from genetic factors?
Abstract There is an agreement about joint genetic and environmental background of musical reception and performance. Musical abilities tend to cluster in families. The studies done on a random population, twins and families of gifted musicians provided a strong support for genetic contribution. Modern biomolecular techniques exploring linkage analysis, variation of gene copy number, scanning for whole-genome expression helped to identify genes, or chromosome regions associated with musical aptitude. Some studies were focused on rare ability to recognize tone without reference that is known as a perfect pitch wher...
Source: J Appl Genet - June 12, 2020 Category: Genetics & Stem Cells Authors: Szyfter K, Witt MP Tags: J Appl Genet Source Type: research

Genome-wide development of miRNA-based SSR markers in Cleistogenes songorica and analysis of their transferability to Gramineae/non-Gramineae species.
In conclusion, the results showed that an miRNA-based microsatellite marker system can be applicable for genetic diversity and marker-assisted breeding studies. PMID: 32507975 [PubMed - as supplied by publisher] (Source: J Appl Genet)
Source: J Appl Genet - June 7, 2020 Category: Genetics & Stem Cells Authors: Kanzana G, Zhang Y, Ma T, Liu W, Wu F, Yan Q, Min X, Yan Z, Muvunyi BP, Li J, Zhang Z, Zhao Y, Zhang J Tags: J Appl Genet Source Type: research

Molecular identification of slow rusting resistance Lr46/Yr29 gene locus in selected triticale ( × Triticosecale Wittmack) cultivars.
Molecular identification of slow rusting resistance Lr46/Yr29 gene locus in selected triticale (× Triticosecale Wittmack) cultivars. J Appl Genet. 2020 May 18;: Authors: Skowrońska R, Tomkowiak A, Nawracała J, Kwiatek MT Abstract Recently, leaf rust and yellow rust caused by the fungi Puccinia triticina Erikss. and P. striiformis Westend f. sp. tritici Eriks and Henn are diseases of increasing threat in triticale (× Triticosecale Wittmack, AABBRR, 2n = 6x = 42) growing areas. The use of genetic resistance is considered the most economical, effective and enviro...
Source: J Appl Genet - May 18, 2020 Category: Genetics & Stem Cells Authors: Skowrońska R, Tomkowiak A, Nawracała J, Kwiatek MT Tags: J Appl Genet Source Type: research

Cyto-genotoxic effects of Pinoxaden on Allium cepa L. roots.
In this study, cyto-genotoxic effects of Pinoxaden on the Allium cepa roots were investigated using Allium ana-telophase and comet assays by determining the root growth, mitotic index (MI), mitotic phases, chromosomal aberrations (CAs) and DNA damage. Different concentrations of Pinoxaden from 0.5 to 100 mg/L were employed on root tips for 96 h to find the effective concentration that reduces root tip elongation by 50% in comparison with negative control (EC50). Pinoxaden concentrations of 1.25 mg/L (1/2xEC50), 2.5 mg/L (EC50) and 5 mg/L (2xEC50); methyl methane sulphonate (MMS, 10 mg/L) for p...
Source: J Appl Genet - May 12, 2020 Category: Genetics & Stem Cells Authors: Aydın G, Liman R Tags: J Appl Genet Source Type: research

A complex network of QTL for thousand-kernel weight in the rye genome.
Abstract Here, QTL mapping for thousand-kernel weight carried out within a 541 × Ot1-3 population of recombinant inbred lines using high-density DArT-based map and three methods (single-marker analysis with F parametric test, marker analysis with the Kruskal-Wallis K* nonparametric test, and the recently developed analysis named genes interaction assorting by divergent selection with χ2 test) revealed 28 QTL distributed over all seven rye chromosomes. The first two methods showed a high level of consistency in QTL detection. Each of 13 QTL revealed in the course of gene interaction assortin...
Source: J Appl Genet - April 30, 2020 Category: Genetics & Stem Cells Authors: Masojć P, Kruszona P, Bienias A, Milczarski P Tags: J Appl Genet Source Type: research

Discrete roles of RNA helicases in human male germline and spermatogenesis.
Abstract RNA helicases are known from their ability to bind and unwind double-stranded RNA initiating RNA processing events. These evolutionary conserved RNA binding proteins are broadly expressed in a variety of tissues; however, we can distinguish those, which represent tissue-specific expression pattern and play unique roles in certain cell lineages. For instance, some RNA helicases mediate transcriptomic changes triggering cell differentiation which results in specification and establishment of germline in a developing embryo. Others act as safeguards responsible for maintenance of DNA integrity in germ cell. ...
Source: J Appl Genet - April 24, 2020 Category: Genetics & Stem Cells Authors: Tutak K, Rozwadowska N Tags: J Appl Genet Source Type: research

Chromosome instabilities in resynthesized Brassica napus revealed by FISH.
Abstract Brassica napus is an allopolyploid plant, derived from spontaneous hybridization between Brassica rapa and Brassica oleracea. Intensive breeding has led to a significant reduction in genetic and phenotypic diversity within this species. Newly resynthesized hybrids from progenitor species may restore some diversity in B. napus, but they often are chromosomally and phenotypically unstable. Using fluorescence in situ hybridization, we tested chromosome constitutions in a range of new allopolyploids resynthesized from various parental species. A majority of these allopolyploids were euploid, with the expected...
Source: J Appl Genet - April 22, 2020 Category: Genetics & Stem Cells Authors: Sosnowska K, Majka M, Majka J, Bocianowski J, Kasprowicz M, Książczyk T, Szała L, Cegielska-Taras T Tags: J Appl Genet Source Type: research

FISH karyotype comparison between Ab- and A-genome chromosomes using oligonucleotide probes.
In this study, fluorescence in situ hybridization (FISH) analysis using nine oligonucleotide probes revealed high divergence between chromosomes of the common wheat germplasm Crocus and T. boeoticum accession G52. The combination of Oligo-pTa535-HM and Oligo-pSc119.2-HM can differentiate Ab and A chromosomes within homologous groups 2, 4, 5, and 6; chromosomes 2Ab and 6Ab can be identified by using (ACT)7, (CTT)7, and (GAA)7. The probes Oligo-pTa713 and (ACT)7 can be utilized for the identification of chromosomes 1Ab and 3Ab, respectively. Probes (CAG)7 and (CAC)7 can be applied in the identification of 7Ab. Moreover, prob...
Source: J Appl Genet - April 5, 2020 Category: Genetics & Stem Cells Authors: Feng Z, Zhang M, Liu X, Liang D, Liu X, Hao M, Liu D, Ning S, Yuan Z, Jiang B, Chen X, Chen X, Zhang L Tags: J Appl Genet Source Type: research

Insights into genetic diversity and population structure of Indian carrot (Daucus carota L.) accessions.
Abstract Carrot (Daucus carota L.) is acknowledged as a highly valuable vegetable crop. Despite having high demand, limited breeding efforts have been made to develop the varieties and hybrids suitable to wider climatic conditions due to improper characterization of the available germplasm. An accession panel (AP) consisting of 144 accessions of five different root colors representing Asiatic and Western gene pools collected from different parts of India was utilized in the present study. This diverse AP was used to assess the population structure and genetic diversity from 80 polymorphic DNA markers distributed t...
Source: J Appl Genet - April 2, 2020 Category: Genetics & Stem Cells Authors: Chaitra KC, Sarvamangala C, Manikanta DS, Chaitra PA, Fakrudin B Tags: J Appl Genet Source Type: research

Impact of gene therapy for canine monogenic diseases on the progress of preclinical studies.
Abstract Rapid progress in knowledge of the organization of the dog genome has facilitated the identification of the mutations responsible for numerous monogenic diseases, which usually present a breed-specific distribution. The majority of these diseases have clinical and molecular counterparts in humans. The affected dogs have thus become valuable models for preclinical studies of gene therapy for problems such as eye diseases, immunodeficiency, lysosomal storage diseases, hemophilia, and muscular dystrophy. Successful gene therapies in dogs have significantly contributed to decisions to run clinical trials for ...
Source: J Appl Genet - March 18, 2020 Category: Genetics & Stem Cells Authors: Switonski M Tags: J Appl Genet Source Type: research

AP4B1-associated hereditary spastic paraplegia: expansion of phenotypic spectrum related to homozygous p.Thr387fs variant.
We describe a homozygous, known variant c.1160_1161delCA (p.Thr387fs) that was found in the largest ever group of patients coming from four families. The patients exhibited early hypotonia progressing to spastic paraplegia, microcephaly, epilepsy, and central nervous system (CNS) defects and global developmental delay that are consistent with the nature of SPG47. Our findings expand phenotypic spectrum of SPG47 to include polymorphic seizures, mild/moderate intellectual disability, and intracerebral cysts as well as point to founder mutation in AP4 deficiency disorders in apparently non-consanguineous Polish families witho...
Source: J Appl Genet - March 12, 2020 Category: Genetics & Stem Cells Authors: Szczałuba K, Mierzewska H, Śmigiel R, Kosińska J, Koppolu A, Biernacka A, Stawiński P, Pollak A, Rydzanicz M, Płoski R Tags: J Appl Genet Source Type: research

Testosterone increases apoptotic cell death and decreases mitophagy in Leber's hereditary optic neuropathy cells.
In this study, a cell model was used for the first time to investigate the influence of testosterone on the cell death mechanism apoptosis and on an autophagy/mitophagy. Cells with m.11778G > A were found to be significantly more susceptible to nucleosome formation and effector caspase activation that serve as hallmarks of apoptotic cell death. Cells having this mutation expressed higher levels of mitophagic receptors BNIP3 and BNIP3L/Nix in a medium with testosterone. Moreover, cells having the mutation exhibited greater mitochondrial mass, which suggests these cells have a decreased cell survival. The ob...
Source: J Appl Genet - March 10, 2020 Category: Genetics & Stem Cells Authors: Jankauskaitė E, Ambroziak AM, Hajieva P, Ołdak M, Tońska K, Korwin M, Bartnik E, Kodroń A Tags: J Appl Genet Source Type: research

Growth assessment in children with Williams-Beuren syndrome: a systematic review.
Conclusion: Patients with WBS have a growth pattern different from the general reference population. The reference charts for normal population should not be used for WBS patients because it often underestimate their growth. Specific growth charts for WBS patients are necessary. PMID: 32157657 [PubMed - as supplied by publisher] (Source: J Appl Genet)
Source: J Appl Genet - March 10, 2020 Category: Genetics & Stem Cells Authors: de Sousa Lima Strafacci A, Fernandes Camargo J, Bertapelli F, Guerra Júnior G Tags: J Appl Genet Source Type: research

Development, identification, and characterization of blue-grained wheat-Triticum boeoticum substitution lines.
In this study, six blue-grained wheat lines were developed from F8 progeny of crosses between common wheat and T. boeoticum. The chromosome constitutions of these lines were characterized by fluorescence in situ hybridization (FISH) using the oligonucleotide probes Oligo-pTa535-1, Oligo-pSc119.2-1, Oligo-pTa71-2, and (AAC)7. Multicolor FISH using Oligo-pTa535-1, Oligo-pSc119.2-1, and Oligo-pTa71-2 identified all 42 common wheat chromosomes, while Oligo-pTa535-1 and (AAC)7 discriminated the 14 chromosomes of T. boeoticum. FISH revealed that all six blue-grained lines were wheat-T. boeoticum 4Ab (4B) disomic substitution lin...
Source: J Appl Genet - February 18, 2020 Category: Genetics & Stem Cells Authors: Liu X, Feng Z, Liang D, Zhang M, Liu X, Hao M, Liu D, Ning S, Yuan Z, Jiang B, Chen X, Chen X, Zhang L Tags: J Appl Genet Source Type: research

Advances in monitoring soil microbial community dynamic and function.
Abstract Microorganisms are vital to the overall ecosystem functioning, stability, and sustainability. Soil fertility and health depend on chemical composition and also on the qualitative and quantitative nature of microorganisms inhabiting it. Historically, denaturing gradient gel electrophoresis (DGGE) and temperature gradient gel electrophoresis (TGGE), single-strand conformation polymorphism, DNA amplification fingerprinting, amplified ribosomal DNA restriction analysis, terminal restriction fragment length polymorphism, length heterogeneity PCR, and ribosomal intergenic spacer analysis were used to assess soi...
Source: J Appl Genet - February 15, 2020 Category: Genetics & Stem Cells Authors: Nkongolo KK, Narendrula-Kotha R Tags: J Appl Genet Source Type: research

Genetic structure of important resident brown trout breeding lines in Poland.
Abstract The history of brown trout Salmo trutta L. stocking has long tradition in the European Union and other countries. Hundreds of hatchery facilities on continent have artificial broodstocks used for enhancement of neighbouring and also geographically far river basins. These practices have substantial effect on wild brown trout populations. To illuminate this phenomenon, eleven hatchery stocks and wild populations from northern Poland and Carpathian region were analysed using 13 microsatellite markers. Obtained results revealed high genetic diversity between studied stocks and clear differentiation between no...
Source: J Appl Genet - February 10, 2020 Category: Genetics & Stem Cells Authors: Bernaś R, Wąs-Barcz A Tags: J Appl Genet Source Type: research

Response to the commentary by Gholami and Amoli.
PMID: 32034699 [PubMed - as supplied by publisher] (Source: J Appl Genet)
Source: J Appl Genet - February 8, 2020 Category: Genetics & Stem Cells Authors: Laczmanska I, Sasiadek MM Tags: J Appl Genet Source Type: research

Metagenomic analysis exploring taxonomic diversity of rumen microbial communities in Vechur and crossbred cattle of Kerala state, India.
Abstract Rumen, one of the most productive diverse microbial habitats plays a vital role in the breakdown of feed to produce energy for maintenance and milk production in cattle. Culture-based procedures could identify only 10% of microbial species present in the rumen. Kerala, one of the southern states of India, owns only one native cattle breed, the Vechur cattle, which is noted for its short stature, disease resistance and adaptability to hot humid climate. Lower population density and decreased milk production potential of Vechur cattle led to the development of crossbred cattle of Kerala, with higher milk yi...
Source: J Appl Genet - January 31, 2020 Category: Genetics & Stem Cells Authors: Sadan T, Aravindakshan TV, Radhika G, Anand LF, Ally K Tags: J Appl Genet Source Type: research

Novel and recurrent variants of ATP2C1 identified in patients with Hailey-Hailey disease.
ska K Abstract Hailey-Hailey disease (HHD) is a rare, late-onset autosomal dominant genodermatosis characterized by blisters, vesicular lesions, crusted erosions, and erythematous scaly plaques predominantly in intertriginous regions. HHD is caused by ATP2C1 mutations. About 180 distinct mutations have been identified so far; however, data of only few cases from Central Europe are available. The aim was to analyze the ATP2C1 gene in a cohort of Polish HHD patients. A group of 18 patients was enrolled in the study based on specific clinical symptoms. Mutations were detected using Sanger or next generation sequencin...
Source: J Appl Genet - January 25, 2020 Category: Genetics & Stem Cells Authors: Sawicka J, Kutkowska-Kaźmierczak A, Woźniak K, Tysarowski A, Osipowicz K, Poznański J, Rygiel AM, Braun-Walicka N, Niepokój K, Bal J, Kowalewski C, Wertheim-Tysarowska K Tags: J Appl Genet Source Type: research

A new DNA sequence entropy-based Kullback-Leibler algorithm for gene clustering.
In this study, for each gene and its exons sets, the entropy was calculated in orders one to four. Based on the relative entropy of genes and exons, Kullback-Leibler divergence was calculated. After obtaining the Kullback-Leibler distance for genes and exons sets, the results were entered as input into 7 clustering algorithms: single, complete, average, weighted, centroid, median, and K-means. To aggregate the results of clustering, the AdaBoost algorithm was used. Finally, the results of the AdaBoost algorithm were investigated by GeneMANIA prediction server to explore the results from gene annotation point of view. All c...
Source: J Appl Genet - January 24, 2020 Category: Genetics & Stem Cells Authors: Dehghanzadeh H, Ghaderi-Zefrehei M, Mirhoseini SZ, Esmaeilkhaniyan S, Haruna IL, Amirpour Najafabadi H Tags: J Appl Genet Source Type: research

Genetic analysis of Aegilops tauschii-derived seedling resistance to leaf rust in synthetic hexaploid wheat.
Abstract Seedling resistance to leaf rust available in the synthetic hexaploid wheat line Syn137 was characterised by means of cytogenetic and linkage mapping. Monosomic analysis located a single dominant gene for leaf rust resistance on chromosome 5D. Molecular mapping not only confirmed this location but also positioned the gene to the distal part of the long arm of chromosome 5D. A test of allelism showed that the gene, tentatively named LrSyn137, is independent but closely linked to Lr1. It appears that Syn137 is occasionally heterogeneous for Lr1 since the analysis of the Lr1-specific marker RGA567-5 in the g...
Source: J Appl Genet - January 24, 2020 Category: Genetics & Stem Cells Authors: Mohler V, Schmolke M, Zeller FJ, Hsam SLK Tags: J Appl Genet Source Type: research

Long non-coding RNAs in cervical cancer.
e;vila-Avilés RD Abstract Cervical-uterine cancer is the fourth most common neoplasm among women in the world. It originates in the cells lining the cervix, the lower part of the uterus. Many factors conducive to the formation of carcinogenic tumors are generally known. This review focuses on cervical-uterine cancer in relation to long non-coding RNAs (LncRNA). The role played by each LncRNA has a wide range of biological processes, such as stress response, pluripotency of embryonic stem cells, and regulatory processes. Likewise said, role of the LncRNA will depend on the tissue in which they are housed. Th...
Source: J Appl Genet - January 24, 2020 Category: Genetics & Stem Cells Authors: Arredondo-Robles AV, Rodríguez-López KP, Ávila-Avilés RD Tags: J Appl Genet Source Type: research

Interaction between serine carboxypeptidase-like protein TtGS5 and Annexin D1 in developing seeds of Triticum timopheevi.
Abstract GS5 encoding a serine carboxypeptidase-like protein positively regulates grain size and weight through the regulation of grain width and filling and is helpful in improving cereal yields. Grain width variation determined by GS5 is associated with cell number and size, but the actual underlying mechanism is still unclear. Two orthologs of GS5, TtGS5-3A-G and TtGS5-3G-G, were cloned from the Triticum timopheevi accession no. CWI17006. To identify the proteins that interacted with TtGS5-3A-G and TtGS5-3G-G in premature grains, we performed pull-down assays followed by liquid chromatography-mass spectrometry/...
Source: J Appl Genet - January 22, 2020 Category: Genetics & Stem Cells Authors: Jiang P, Gao J, Mu J, Duan L, Gu Y, Han S, Chen L, Li Y, Yan Y, Li X Tags: J Appl Genet Source Type: research

The ploidy determination of the biotechnologically important yeast Candida utilis.
In this study, we come to the conclusion that the maltase gene is present in C. utilis genome in four alleles, and in combination with flow cytometry, published information and the published genome sequences, the observations support the theory about tetraploidy of C. utilis. PMID: 31965459 [PubMed - as supplied by publisher] (Source: J Appl Genet)
Source: J Appl Genet - January 21, 2020 Category: Genetics & Stem Cells Authors: Krahulec J, Lišková V, Boňková H, Lichvariková A, Šafranek M, Turňa J Tags: J Appl Genet Source Type: research

Clinical cases, drug resistance, and virulence genes profiling in Uropathogenic Escherichia coli.
Abstract Uropathogenic Escherichia coli (UPEC) as the most important bacterial agent of urinary tract infections (UTIs) encompasses a wide treasure of virulence genes and factors. In due to this default, the aim of this research was to detect and identify some important virulence genes including cnf1, upaH, hlyA, ibeA, and cdtB in isolated UPEC pathotypes. In this research, clinical samples of urine were collected in Shahr-e-Qods, Tehran, Iran. The UPEC pathotypes were confirmed by standard biochemical tests. The DNAs of isolated bacteria were extracted. The genes of cnf1, upaH, hlyA, ibeA, and cdtB were run for m...
Source: J Appl Genet - January 16, 2020 Category: Genetics & Stem Cells Authors: Hozzari A, Behzadi P, Kerishchi Khiabani P, Sholeh M, Sabokroo N Tags: J Appl Genet Source Type: research

Melanin production as a visual indicator of conjugal transfer in Streptomyces.
Abstract To visualize transfer of plasmid in Streptomyces during conjugation, we constructed a conjugative plasmid that harbored melC operon encoding an extracellular tyrosinase and placed it in Streptomyces hosts which were defective in expressing the operon. Hyphae of these donors were mixed with hyphae of a plasmidless recipient, which could express melC, and plated on a solid medium supplemented with tyrosine. After 8 to 9 h of incubation, melanin started to appear in the mating mixture, indicating that the plasmid had entered the recipient and started to synthesize tyrosinase, which in turn catalyzed the...
Source: J Appl Genet - January 13, 2020 Category: Genetics & Stem Cells Authors: Chen TW, Chen CW Tags: J Appl Genet Source Type: research

CRISPR/Cas9 gene editing in a chicken model: current approaches and applications.
Abstract Improvements in genome editing technology in birds using primordial germ cells (PGCs) have made the development of innovative era genome-edited avian models possible, including specific chicken bioreactors, production of knock-in/out chickens, low-allergenicity eggs, and disease-resistance models. New strategies, including CRISPR/Cas9, have made gene editing easy and highly efficient in comparison to the well-known process of homologous recombination. The clustered regularly interspaced short palindromic repeats (CRISPR) technique enables us to understand the function of genes and/or to modify the an...
Source: J Appl Genet - January 10, 2020 Category: Genetics & Stem Cells Authors: Chojnacka-Puchta L, Sawicka D Tags: J Appl Genet Source Type: research

Genome size analysis of field grown and somatic embryo regenerated plants in Allium sativum L.
In conclusion, the present cytological and flow cytometric study suggest that the in vitro culture conditions are quite safe, did not encourage genetic alterations, and regenerants were "true to type." PMID: 31919659 [PubMed - as supplied by publisher] (Source: J Appl Genet)
Source: J Appl Genet - January 9, 2020 Category: Genetics & Stem Cells Authors: Malik MQ, Mujib A, Gulzar B, Zafar N, Syeed R, Mamgain J, Ejaz B Tags: J Appl Genet Source Type: research

CRISPR/Cas9: targeted genome editing for the treatment of hereditary hearing loss.
Abstract Hereditary hearing loss (HHL) is a neurosensory disorder that affects every 1/500 newborns worldwide and nearly 1/3 people over the age of 65. Congenital deafness is inherited as monogenetic or polygenic disorder. The delicacy, tissue heterogeneity, deep location of the inner ear down the brainstem, and minute quantity of cells present in cochlea are the major challenges for current therapeutic approaches to cure deafness. Targeted genome editing is considered a suitable approach to treat HHL since it can target defective molecular components of auditory transduction to restore normal cochlear function. W...
Source: J Appl Genet - January 7, 2020 Category: Genetics & Stem Cells Authors: Farooq R, Hussain K, Tariq M, Farooq A, Mustafa M Tags: J Appl Genet Source Type: research

Development of a gene expression system for the uncommon actinomycete Actinoplanes rectilineatus NRRL B-16090.
Abstract The urgent need for discovering new bioactive metabolites prompts exploring novel actinobacterial taxa by developing appropriate tools for their genome mining and rational genetic engineering. One promising source of new bioactive natural products is the genus Actinoplanes, a home to filamentous sporangia-forming actinobacteria producing many important specialized metabolites such as teicoplanin, ramoplanin, and acarbose. Here we describe the development of a gene expression system for a new Actinoplanes species, A. rectilineatus (NRRL B-16090), which is a potential producer of moenomycin-like antibiotics...
Source: J Appl Genet - January 7, 2020 Category: Genetics & Stem Cells Authors: Yushchuk O, Homoniuk V, Datsiuk Y, Ostash B, Marinelli F, Fedorenko V Tags: J Appl Genet Source Type: research

Genome-wide association analysis of stripe rust resistance loci in wheat accessions from southwestern China.
Abstract Wheat stripe rust can cause considerable yield losses, and genetic resistance is the most effective approach for controlling the disease. To identify the genomic regions responsible for Puccinia striiformis f. sp. tritici (Pst) resistance in a set of winter wheat strains mainly from southwestern China, and to identify DNA markers in these regions, we carried out a genome-wide association study (GWAS) of 120 China winter wheat accessions using single nucleotide polymorphism (SNP) markers from 90K wheat SNP arrays. In total, 16 SNP loci were significantly associated with wheat stripe rust in field and green...
Source: J Appl Genet - January 7, 2020 Category: Genetics & Stem Cells Authors: Cheng B, Gao X, Cao N, Ding Y, Gao Y, Chen T, Xin Z, Zhang L Tags: J Appl Genet Source Type: research

Efficiency of induction of Shiga-toxin lambdoid prophages in Escherichia coli due to oxidative and antibiotic stress depends on the combination of prophage and the bacterial strain.
Abstract In the study presented here, we tested, how large a fraction of lysogenic culture was undergoing filamentation, which could indicate triggering of the SOS response or SOS-independent prophage induction that is also known to cause cell filamentation. Here, antibiotic stress was triggered by adding mitomycin C and oxidative stress was induced by hydrogen peroxide. Observation of bacterial cells under an optical microscope revealed more filamenting cells for lysogenic Escherichia coli than for strains not carrying a prophage. Moreover, the amount of filamenting cells depended not only on the stress agents us...
Source: J Appl Genet - December 6, 2019 Category: Genetics & Stem Cells Authors: Filipiak M, Łoś JM, Łoś M Tags: J Appl Genet Source Type: research

The stringent response of marine bacteria - assessment of (p)ppGpp accumulation upon stress conditions.
Abstract Microorganisms are particularly adapted to alterations in their environment. One of the global regulatory mechanisms involved in these adaptations is the stringent response. The unusual nucleotides, guanosine penta and tetraphosphates, (p)ppGpp act as alarmones of this response, heralding nutrient limitation and stressors. Marine bacteria encounter numerous stresses of sparse nutrient supplies and changes in physicochemical conditions. The aim of this work was to assess whether the stress conditions common in marine environment can induce the stringent response and what is a kinetic of this process. The r...
Source: J Appl Genet - November 26, 2019 Category: Genetics & Stem Cells Authors: Milewska K, Krause K, Szalewska-Pałasz A Tags: J Appl Genet Source Type: research

The impact of disregarding family structure on genome-wide association analysis of complex diseases in cohorts with simple pedigrees.
Abstract The generalized linear mixed models (GLMMs) methodology is the standard framework for genome-wide association studies (GWAS) of complex diseases in family-based cohorts. Fitting GLMMs in very large cohorts, however, can be computationally demanding. Also, the modified versions of GLMM using faster algorithms may underperform, for instance when a single nucleotide polymorphism (SNP) is correlated with fixed-effects covariates. We investigated the extent to which disregarding family structure may compromise GWAS in cohorts with simple pedigrees by contrasting logistic regression models (i.e., with no family...
Source: J Appl Genet - November 21, 2019 Category: Genetics & Stem Cells Authors: Nazarian A, Arbeev KG, Kulminski AM Tags: J Appl Genet Source Type: research

Molecular and cytogenetic description of somatic hybrids between Gentiana cruciata L. and G. tibetica King.
Abstract Somatic hybridization provides an opportunity to create cells with new genetic constitution. Here, the interspecific somatic hybrid plants regenerated in vitro following fusion of cell suspension-derived protoplasts of tetraploid Cross Gentian (Gentiana cruciata L., 2n = 52) with protoplasts released from mesophyll tissue of another tetraploid species, Tibetan Gentian (G. tibetica King, 2n = 52), were studied. According to the results of genome analyses with AFLP, ISSR, and CAPS markers, all somatic hybrids were genetically closer to "suspension" fusion partner G. cruciata than to "mesophyl...
Source: J Appl Genet - November 16, 2019 Category: Genetics & Stem Cells Authors: Tomiczak K Tags: J Appl Genet Source Type: research

Whole blood transcriptome analysis in feedlot cattle after 35  days of supplementation with a β1-adrenergic agonist.
Whole blood transcriptome analysis in feedlot cattle after 35 days of supplementation with a β1-adrenergic agonist. J Appl Genet. 2019 Nov 09;: Authors: Burrack RM, Duffy EM, Yates DT, Schmidt TB, Petersen JL Abstract Ractopamine HCl (RHC) is supplemented to feedlot cattle to improve feed efficiency and increase carcass weight. Supplementation of RHC clearly benefits livestock production, but it is of note that the adrenergic system through which it acts is typically associated with stress. The purpose of this study was to identify changes in the transcriptome of whole blood in RHC-supplemen...
Source: J Appl Genet - November 9, 2019 Category: Genetics & Stem Cells Authors: Burrack RM, Duffy EM, Yates DT, Schmidt TB, Petersen JL Tags: J Appl Genet Source Type: research

Interaction between CA repeat microsatellites and HIF1 α regulated the transcriptional activity of porcine IGF1 promoter.
This study aimed to detect the association of CA repeat microsatellites with the transcriptional regulation of porcine IGF1 and the possible mechanisms. Results revealed that the number of CA repeats in porcine IGF1 promoter was 14-18, and a promoter with 14 or 15 CA repeats had a higher transcriptional activity (P 
Source: J Appl Genet - November 1, 2019 Category: Genetics & Stem Cells Authors: Geng H, Hao L, Cheng Y, Wang C, Huang S, Wei W, Yang R, Li H, Liu S, Yu H, Lu H Tags: J Appl Genet Source Type: research

Genome-wide association studies for growth traits in buffaloes using the single step genomic BLUP.
In this study, the single-step genomic BLUP method was employed to prospect the genomic regions' associated with weight at standard ages of 100, 210, 365, and 550 days in a buffalo population, aiming to identify genes with stronger expression for those characteristics. We found 6, 1, 2, and 5 SNPs significantly associated (p value
Source: J Appl Genet - November 1, 2019 Category: Genetics & Stem Cells Authors: de Araujo Neto FR, Santos DJA, Fernandes Júnior GA, Aspilcueta-Borquis RR, Nascimento AVD, de Oliveira Seno L, Tonhati H, de Oliveira HN Tags: J Appl Genet Source Type: research

Nutrigenomics in livestock-recent advances.
Abstract The study of the effects of nutrients on genome functioning, in terms of gene transcription, protein levels, and epigenetic mechanisms, is referred to as nutrigenomics. Nutrigenomic studies in farm animals, as distinct from rodents, are limited by the high cost of keeping livestock, their long generational distance, and ethical aspects. Yet farm animals, and particularly pigs, can serve as valuable animal models for human gastrological diseases, since they possess similar size, physiology, and nutritional habits and can develop similar pathological states. In livestock, the effects of dietary modification...
Source: J Appl Genet - October 31, 2019 Category: Genetics & Stem Cells Authors: Nowacka-Woszuk J Tags: J Appl Genet Source Type: research

Validation of Diaporthe toxica resistance markers in European Lupinus angustifolius germplasm and identification of novel resistance donors for marker-assisted selection.
zka M Abstract The fungus, Diaporthe toxica, anamorph Phomopsis sp., previously classified as P. leptostromiformis, is a plant endophyte and occasional pathogen, causing Phomopsis stem blight. This disease is damaging not only to lupins but also to the animals grazing on infected plants, due to the toxic secondary metabolites called phomopsins. The aim of this work was to validate markers for resistance to Phomopsis stem blight in narrow-leafed lupins and identify novel germplasm with increased levels of resistance to the disease. Plant inoculations were performed using ten isolates of D. toxica, originating from ...
Source: J Appl Genet - October 22, 2019 Category: Genetics & Stem Cells Authors: Książkiewicz M, Wójcik K, Irzykowski W, Bielski W, Rychel S, Kaczmarek J, Plewiński P, Rudy E, Jędryczka M Tags: J Appl Genet Source Type: research

Mild Zellweger syndrome due to functionally confirmed novel PEX1 variants.
Abstract Zellweger spectrum disorders (ZSD) constitute a group of rare autosomal recessive disorders characterized by a defect in peroxisome biogenesis due to mutations in one of 13 PEX genes. The broad clinical heterogeneity especially in late-onset presenting patients and a mild phenotype complicates and delays the diagnostic process. Here, we report a case of mild ZSD, due to novel PEX1 variants. The patient presented with an early hearing loss, bilateral cataracts, and leukodystrophy on magnetic resonance (MR) images. Normal results of serum very-long-chain fatty acids (VLCFA) and phytanic acid were found. Mol...
Source: J Appl Genet - October 18, 2019 Category: Genetics & Stem Cells Authors: Lipiński P, Stawiński P, Rydzanicz M, Wypchło M, Płoski R, Stradomska TJ, Jurkiewicz E, Ferdinandusse S, Wanders RJA, Vaz FM, Tylki-Szymańska A Tags: J Appl Genet Source Type: research

The correction of ETV6/RUNX1 translocation in acute lymphocytic leukemia cells: a new gene targeting system by homologous recombination mechanism.
Abstract Regarding the uncertainty of the exact cause of the acute lymphocytic leukemia (ALL) caused by ETV6-RUNX1t(12;21) translocation, correcting genes of the ETV6 and RUNX1 in ETV6/RUNX1 fusion gene simultaneously on chromosome 12 may be effective in reducing leukemia malignancy. Thus, we designed an homologous recombination (HR) plasmid to target of the ETV6/RUNX1 fusion gene in the REH cell line containing the ETV6-RUNX1t(12;21) translocation. Cells were cultured and transfected by HR plasmid. The presence of the replacement cassette at specific location in the ETV6/RUNX1 fusion gene was verified by PCR and ...
Source: J Appl Genet - October 10, 2019 Category: Genetics & Stem Cells Authors: Akbari M, Ebrahimabadi S, Golalipour M, Shahbazi M, Farazmandfar T Tags: J Appl Genet Source Type: research

Development of multiplex PCR to detect slow rust resistance genes Lr34 and Lr46 in wheat.
Abstract Leaf rust caused by Puccinia triticina belongs to one of the most dangerous fungal diseases of wheat (Triticum aestivum L.) and is the cause of large yield losses every year. Here we report a multiplex polymerase chain reaction (PCR) assay, which was developed for detection of two important wheat slow rust resistance genes Lr34 and Lr46, using two molecular markers: csLV34 and Xwmc44, respectively. The presence of genes was analyzed in one winter wheat variety TX89D6435 and five spring wheat varieties: Pavon F76, Parula 'S', Rayon 89, Kern, Mochis 88. Both Lr34 and Lr46 genes were identified in variety TX...
Source: J Appl Genet - September 10, 2019 Category: Genetics & Stem Cells Authors: Skowrońska R, Kwiatek M, Tomkowiak A, Nawracała J Tags: J Appl Genet Source Type: research