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  • 1
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    Online Resource
    Elucidating the Genetic Factors Contributing Towards Susceptibility and Severity of Covid 19
    Bentham Science Publishers Ltd. ; 2021
    In:  Current Chinese Science Vol. 1, No. 6 ( 2021-11), p. 595-607
    Details
    In: Current Chinese Science, Bentham Science Publishers Ltd., Vol. 1, No. 6 ( 2021-11), p. 595-607
    Abstract: COVID-19 or SARS-CoV-2 or 2019-nCov is a pandemic disease that occurred in December 2019 in Wuhan, Hubei Province of China. It was first transmitted from the animal host to a human source, after which it followed human-human transmission and spread exponentially worldwide. Various countries have fallen prey to this virus, but there are certain countries or populations, which have been more affected by this than others. Moreover, the demographics of transmission and affected individuals are also variable from country-country. The purpose of this article is to highlight the non-modifiable risk factors for COVID-19 and their analysis in various populations affecting their susceptibility. Besides age, gender, and blood group, two major genetic factors associated with this disease are discussed here, including the potential of IL-6, in causing chronic disease conditions and the rs1800795 G/C-174 IL-6 polymorphism in the IL-6 gene and with the potential role of ACE-2 receptor in viral transmission and pathogenicity with its protective and disease-causing variants.
    Type of Medium: Online Resource
    ISSN: 2210-2981
    URL: Article
    DOI: 10.2174/2210298101666210914085627
    Language: English
    Publisher: Bentham Science Publishers Ltd.
    Publication Date: 2021
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  • 2
    Online Resource
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    Conservation Initiatives/Practices at Universities
    Institute of Research and Community Services Diponegoro University (LPPM UNDIP) ; 2021
    In:  Journal of Sustainability Perspectives Vol. 1, No. 2 ( 2021-07-17)
    Details
    In: Journal of Sustainability Perspectives, Institute of Research and Community Services Diponegoro University (LPPM UNDIP), Vol. 1, No. 2 ( 2021-07-17)
    Abstract: Growing actions on putting into practice the policy for improving sustainable development gives universities great variety of opportunities on implementation of different ‘green’ technologies in their campuses. Campus greening is the first step towards sustainability. The purpose of this article is to present existing approaches on the categories of sustainable campus initiatives, their significance for complete region development and the state of the environment. On the example of the inner garden of Volgograd State University, the authors describe the importance of greening the external campus sites for minimization of the negative environmental and health affects for students and faculty staff. The green initiative reflects the institution’s function as center of technological and social regional development. The green garden can reduce stress and also provide an esthetic sense by involving attractive surroundings. The impact of climatic zone on emerging of appropriate management and maintenance systems, meaningful comparison with the past landscape solutions are also reviewed in the present article. By implementing green technologies, the university shows its prudence and readiness to behave responsibly, sensibly and maturely in response to sustainability issues of the present and the future.
    Type of Medium: Online Resource
    ISSN: 2797-7137
    URL: Article
    DOI: 10.14710/jsp.2021.11752
    Language: English
    Publisher: Institute of Research and Community Services Diponegoro University (LPPM UNDIP)
    Publication Date: 2021
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  • 3
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    Identification of Stress-induced miRNAs and their Targets in Solanum lycopersicum
    Bentham Science Publishers Ltd. ; 2021
    In:  Current Chinese Science Vol. 1, No. 4 ( 2021-07), p. 397-405
    Details
    In: Current Chinese Science, Bentham Science Publishers Ltd., Vol. 1, No. 4 ( 2021-07), p. 397-405
    Abstract: MicroRNAs (miRNAs) are small endogenous non-coding RNAs that are roughly 18-22 nucleotides long. They play important roles in different natural procedures. As of now, little is known about their role in plant stress. The use of computational homology-based techniques for Expressed Sequence Tags (ESTs) with the Ambros exact method and other structural component criteria is a rational approach for the disclosure and confinement of conserved miRNAs from several species. Aims: The study aimed to identify novel stress induced miRNAs in tomato, using a computational approach. Methods: We used previously known sequences of mature miRNAs of different plants; Vitis, Oryza, Triticum and Sorghum for the prediction of potential novel miRNAs in tomatoes. The hairpin strucutres of miRNAs were predicted, their functional annotations were performed, and the targeted genes were identified. Results: Only two miRNAs were predicted and validated to be novel belonging to the family of miRNA1301. The expression analysis of the novel miRNAs showed their significant role in the growth and development of the respective tissues. We have found that the miRNAs in the leaf are highly conserved related to the seed. This discovery significantly broadens the understanding of the functions of miRNA in tomatoes. MiR1301 was found to play a role in transcriptional activation and transporter activity, also involved in ubiquitin-protein ligase translation and transcription. 7 potential targets were predicted for the two identified miRNAs. Conclusion: Identification of new miRNAs and their target genes will establish the potential roadmap for understanding the core regulatory interactions during abiotic stress in S. Lycopersicum.
    Type of Medium: Online Resource
    ISSN: 2210-2981
    URL: Article
    DOI: 10.2174/2210298101666210617095627
    Language: English
    Publisher: Bentham Science Publishers Ltd.
    Publication Date: 2021
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  • 4
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    Akkeremencia muciniphila: from Normal Gut Microflora to Probiotic against Obesity probiotic and safety Potentials
    The Women University Multan, Pakistan ; 2021
    In:  Pakistan Journal of Biochemistry and Biotechnology Vol. 2, No. 2 ( 2021-12-31), p. 75-86
    Details
    In: Pakistan Journal of Biochemistry and Biotechnology, The Women University Multan, Pakistan, Vol. 2, No. 2 ( 2021-12-31), p. 75-86
    Abstract: Probiotics are gaining interest as an alternative to antimicrobial drugs for treatment and control of digestive malfunctions including functional gastrointestinal disorders. Probiotics comes with a property to not only support a gut barrier but also enhancing health by supporting immune system, which could be utilized to control metabolic diseases. Akkermansia muciniphila (A. muciniphila), an intestinal symbiont colonizing in the mucosal layer, is considered to be a promising candidate as probiotics against inflammatory disorders especially obesity. A. muciniphila is known to have an important value in improving the host metabolic functions and immune responses. However, most of the current researches focus on the correlation between A. muciniphila and metabolic diseases, but very little is known about the causal relationship between them. This study is designed to analyze genomic features of A. muciniphila not only to analyze its safety to be used as probiotic but also to evaluate its probiotic potentials. Pangenome analysis, Clusters of Orthologous Genes COG and phylogenetic analysis revealed that A. muciniphila shows a stable genome character. The antibiotic resistance pattern was analyzed and only intrinsic resistant genes necessary of probiotics were present and no multidrug resistance was found. It was also concluded that no pathogenicity islands or virulent genes are present in any of the selected strains. Hence, A. muciniphila could be considered safe to be used as probiotic, for further validation, genomic islands of each strain were separately analyzed. Bacteriocin producing genes of each strain were also analyzed proposing the conclusion that A. muciniphila is safe and has potential to be used as probiotic against metabolic diseases especially obesity.
    Type of Medium: Online Resource
    ISSN: 2707-5494
    URL: Issue
    URL: Article
    DOI: 10.52700/pjbb.v2i2
    DOI: 10.52700/pjbb.v2i2.46
    Language: Unknown
    Publisher: The Women University Multan, Pakistan
    Publication Date: 2021
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  • 5
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    Supplemental Information 2: Investigation of tilling with a window size of 5 nt across the full-length gRNA sequences
    PeerJ ; 2021
    In:  PeerJ Vol. 9 ( 2021-05-21), p. e11409-
    Details
    In: PeerJ, PeerJ, Vol. 9 ( 2021-05-21), p. e11409-
    Abstract: The CRISPR-Cas9 system has recently evolved as a powerful mutagenic tool for targeted genome editing. The impeccable functioning of the system depends on the optimal design of single guide RNAs (sgRNAs) that mainly involves sgRNA specificity and on-target cleavage efficacy. Several research groups have designed algorithms and models, trained on mammalian genomes, for predicting sgRNAs cleavage efficacy. These models are also implemented in most plant sgRNA design tools due to the lack of on-target cleavage efficacy studies in plants. However, one of the major drawbacks is that almost all of these models are biased for considering only coding regions of the DNA while excluding ineffective regions, which are of immense importance in functional genomics studies especially for plants, thus making prediction less reliable. In the present study, we evaluate the on-target cleavage efficacy of experimentally validated sgRNAs designed against diverse ineffective regions of Arabidopsis thaliana genome using various statistical tests. We show that nucleotide preference in protospacer adjacent motif (PAM) proximal region, GC content in the PAM proximal seed region, intact RAR and 3 rd stem loop structures, and free accessibility of nucleotides in seed and tracrRNA regions of sgRNAs are important determinants associated with their high on-target cleavage efficacy. Thus, our study describes the features important for plant sgRNAs high on-target cleavage efficacy against ineffective genomic regions previously shown to give rise to ineffective sgRNAs. Moreover, it suggests the need of developing an elaborative plant-specific sgRNA design model considering the entire genomic landscape including ineffective regions for enabling highly efficient genome editing without wasting time and experimental resources.
    Type of Medium: Online Resource
    ISSN: 2167-8359
    URL: Article
    URL: Article
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    URL: Article
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    URL: Article
    URL: Article
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    URL: Article
    DOI: 10.7717/peerj.11409
    DOI: 10.7717/peerj.11409/fig-1
    DOI: 10.7717/peerj.11409/fig-2
    DOI: 10.7717/peerj.11409/fig-3
    DOI: 10.7717/peerj.11409/fig-4
    DOI: 10.7717/peerj.11409/fig-5
    DOI: 10.7717/peerj.11409/fig-6
    DOI: 10.7717/peerj.11409/fig-7
    DOI: 10.7717/peerj.11409/table-1
    DOI: 10.7717/peerj.11409/table-2
    DOI: 10.7717/peerj.11409/table-3
    DOI: 10.7717/peerj.11409/supp-1
    DOI: 10.7717/peerj.11409/supp-2
    Language: English
    Publisher: PeerJ
    Publication Date: 2021
    detail.hit.zdb_id: 2703241-3
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  • 6
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    Association of BDNF Gene (rs6265/G196A) Polymorphism with Depression
    National University of Sciences and Technology ; 2022
    In:  NUST Journal of Natural Sciences Vol. 6, No. 2 ( 2022-02-28)
    Details
    In: NUST Journal of Natural Sciences, National University of Sciences and Technology, Vol. 6, No. 2 ( 2022-02-28)
    Abstract: Depression affects an individual’s feelings, thoughts, and behavior. It is known as the most common mental illness worldwide with complex origin. The risk factors for depression include both genetic as well as environmental factors. Depression is affecting more than 300 million individuals globally and is categorized as a major cause of the global burden of disease. Several studies demonstrate the involvement of the brain-derived neurotrophic factor (BDNF) gene in the etiology of depressive disorder. This study was designed to assess the association of (rs6265/G196A) polymorphism of the BDNF gene in the pathogenesis of depression. The cross-sectional study was conducted consisting of 357 samples from Rawalpindi, Pakistan. Depression was determined through questionnaire, using DSM-Ⅳ (Diagnostic and Statistical Manual for Mental Disorders-Version Ⅳ). DNA was extracted from the blood samples of study participants. The conventional polymerase chain reaction was performed to amplify the BDNF gene and to detect the frequency of rs6265/ G196A SNP in the samples of subjects under study. Statistical analysis was done using Pearson’s Chi-Squared test. It was observed that the homozygous GG genotype is more prevalent in study subjects than the homozygous AA or heterozygous AG genotypes. However, depression is likely to be more prevalent in AA genotype i.e., 37.8%, less prevalent in AG genotype i.e., 34.0%, and least prevalent in GG genotype i.e., 28.2%. This data shows the A allele of the BDNF gene to be more associated with depression than the G allele, suggesting this polymorphism to be a somewhat potential target for anti-depressants.
    Type of Medium: Online Resource
    ISSN: 2710-222X , 2072-4659
    URL: Issue
    URL: Article
    DOI: 10.53992/njns.v6i2
    DOI: 10.53992/njns.v6i2.78
    Language: Unknown
    Publisher: National University of Sciences and Technology
    Publication Date: 2022
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  • 7
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    Complete genome sequence of Corynebacterium pseudotuberculosis biovar ovis strain P54B96 isolated from antelope in South Africa obtained by rapid next generation sequencing technology
    Springer Science and Business Media LLC ; 2012
    In:  Standards in Genomic Sciences Vol. 7, No. 2 ( 2012-12-15), p. 189-199
    Details
    In: Standards in Genomic Sciences, Springer Science and Business Media LLC, Vol. 7, No. 2 ( 2012-12-15), p. 189-199
    Type of Medium: Online Resource
    ISSN: 1944-3277
    URL: Article
    DOI: 10.4056/sigs.3066455
    Language: English
    Publisher: Springer Science and Business Media LLC
    Publication Date: 2012
    detail.hit.zdb_id: 2586662-X
    detail.hit.zdb_id: 3007163-X
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  • 8
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    Whole-Genome Sequence of Corynebacterium pseudotuberculosis Strain Cp162, Isolated from Camel
    American Society for Microbiology ; 2012
    In:  Journal of Bacteriology Vol. 194, No. 20 ( 2012-10-15), p. 5718-5719
    Details
    In: Journal of Bacteriology, American Society for Microbiology, Vol. 194, No. 20 ( 2012-10-15), p. 5718-5719
    Abstract: Corynebacterium pseudotuberculosis is a pathogen of great veterinary and economic importance, since it affects livestock, mainly sheep and goats, worldwide, together with reports of its presence in camels in several Arabic, Asiatic, and East and West African countries, as well as Australia. In this article, we report the genome sequence of Corynebacterium pseudotuberculosis strain Cp162, collected from the external neck abscess of a camel in the United Kingdom.
    Type of Medium: Online Resource
    ISSN: 0021-9193 , 1098-5530
    URL: Article
    DOI: 10.1128/JB.01373-12
    Language: English
    Publisher: American Society for Microbiology
    Publication Date: 2012
    detail.hit.zdb_id: 1481988-0
    SSG: 12
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  • 9
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    Impact of BAP on in Vitro Regeneration of Potato (Solanum Tuberosum L.)
    University of Management and Technology ; 2021
    In:  Current Trends in OMICS Vol. 1, No. 2 ( 2021-12-29), p. 67-79
    Details
    In: Current Trends in OMICS, University of Management and Technology, Vol. 1, No. 2 ( 2021-12-29), p. 67-79
    Abstract: The potato (Solanum tuberosum L.) plant is grown in about 150 countries of the world and is considered an important food crop. However, this crop is susceptible to different biotic and abiotic factors, which can affect its crop yield. This vulnerability can be reduced or eliminated by growing potatoes under sterilized conditions. Cytokinins, such as 6-Benzylaminopurine, are proven to show a significant role in the in vitro regulation of plants. In the current study, explants of Kuroda variety were/potato cv. Kuroda were grown using diverse concentrations of 6-Benzylaminopurine (BAP), which displayed varied results. BAP concentration of 0.01 mg/l showed a 10 cm shoot length with 41 shoots having 66.66% regeneration efficiency. Meanwhile, the explant grown in 0.25 mg/l BAP concentration showed 16 cm shoot length with 65 shoots having 83.33% regeneration efficiency. On the other hand, the explants that were grown using 0.05 mg/l and 1 mg/l BAP concentration showed 7 cm and 10 cm shoot length with 35 and 52 shoots having 63.33% and 76.66% regeneration efficiency, respectively. Therefore, it was concluded that 0.25 mg/L of BAP showed the best results with the highest number of shoots and shoot length as well as maximum regeneration efficiency among all the tested concentrations.
    Type of Medium: Online Resource
    ISSN: 2790-8291 , 2790-8283
    URL: Issue
    URL: Article
    DOI: 10.32350/cto.12
    DOI: 10.32350/cto.12.04
    Language: Unknown
    Publisher: University of Management and Technology
    Publication Date: 2021
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  • 10
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    Table_1.XLSX
    Frontiers Media SA ; 2020
    In:  Frontiers in Genetics Vol. 11 ( 2020-12-14)
    Details
    In: Frontiers in Genetics, Frontiers Media SA, Vol. 11 ( 2020-12-14)
    Abstract: In plants, F-box proteins (FBPs) constitute one of the largest superfamilies of regulatory proteins. Most F-box proteins are shown to be an integral part of SCF complexes, which carry out the degradation of proteins and regulate diverse important biological processes. Anthers and pollen development have a huge importance in crop breeding. Despite the vast diversity of FBPs in Arabidopsis male reproductive organs, their role in anther and pollen development is not much explored. Moreover, a standard nomenclature for naming FBPs is also lacking. Here, we propose a standard nomenclature for naming the FBPs of Arabidopsis thaliana uniformly and carry out a systematic analysis of sperm cell-specific FBP gene, i.e., 3p.AtFBP113 due to its reported high and preferential expression, for detailed functional annotation. The results revealed that 3p.AtFBP113 is located on the small arm of chromosome and encodes 397 amino acid long soluble, stable, and hydrophilic protein with the possibility of localization in various cellular compartments. The presence of the C-terminal F-box associated domain (FBA) with immunoglobulin-like fold anticipated its role in protein binding. Gene ontology based functional annotation and tissue-specific gene co-expression analysis further strengthened its role in protein binding and ubiquitination. Moreover, various potential post/co-translational modifications were anticipated and the predicted tertiary structure also showed the presence of characteristic domains and fold. Thus, the outcomes of the study will be useful in developing a better understating of the function of 3p.AtFBP113 during the process of pollen development, which will be helpful for targeting the gene for manipulation of male fertility that has immense importance in hybrid breeding.
    Type of Medium: Online Resource
    ISSN: 1664-8021
    URL: Article
    URL: Article
    URL: Article
    DOI: 10.3389/fgene.2020.609668
    DOI: 10.3389/fgene.2020.609668.s001
    DOI: 10.3389/fgene.2020.609668.s002
    Language: Unknown
    Publisher: Frontiers Media SA
    Publication Date: 2020
    detail.hit.zdb_id: 2606823-0
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