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  1. AU="Kasmi, Yassine"
  2. AU="Katori, Machiko"
  3. AU="Richter, Susanna"
  4. AU="Oladipo, Aishat T"
  5. AU="Arango, Alissa"
  6. AU=Manjili Rose H AU=Manjili Rose H
  7. AU=Chen Hongtao
  8. AU="Soto Alsar, Javier"
  9. AU="Eric Woode"
  10. AU="Zybina O"
  11. AU="Reynolds, Cecil R"
  12. AU="Shahidul Khan"
  13. AU="Vasisth, Rashi"
  14. AU="Raju Mandal"
  15. AU="Owen, Noel L"
  16. AU=Liu Xiaolei
  17. AU="Fırıncıoğluları, Ali"
  18. AU="Piepel, Christiane"
  19. AU="Saremi, Saeid"
  20. AU="Dunxian She"

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  1. Artikel ; Online: Mare-MAGE curated reference database of fish mitochondrial genes

    Kasmi, Yassine / Eschbach, Erik / Hanel, Reinhold

    BMC Genom Data. 2023 Dec., v. 24, no. 1 p.18-18

    2023  

    Abstract: Biodiversity assessment approaches based on molecular biology techniques such as metabarcoding, RAD-seq, or SnaPshot sequencing are increasingly applied in assessing marine and aquatic ecosystems. Here we present a new reference database for fish meta- ... ...

    Abstract Biodiversity assessment approaches based on molecular biology techniques such as metabarcoding, RAD-seq, or SnaPshot sequencing are increasingly applied in assessing marine and aquatic ecosystems. Here we present a new reference database for fish meta-barcoding based on mitochondrial genes. The Mare-MAGE database contains quality-checked sequences of the mitochondrial 12S ribosomal RNA and Cytochrome c Oxidase I gene. All sequences were obtained from the National Center for Biotechnology Information- GenBank (NBCI-GenBank), the European Nucleotide Archive (ENA), AquaGene Database and BOLD database, and have undergone intensive processing. They were checked for false annotations and non-target anomalies, according to the Integrated Taxonomic Information System (ITIS) and FishBase. The dataset is compiled in ARB-Home, FASTA and Qiime2 formats, and is publicly available from the Mare-MAGE database website (http://mare-mage.weebly.com/). It includes altogether 231,333 COI and 12S rRNA gene sequences of fish, covering 19,506 species of 4,058 genera and 586 families.
    Schlagwörter DNA barcoding ; Internet ; biodiversity ; biotechnology ; data collection ; databases ; fish ; genes ; information systems ; mitochondria ; molecular biology ; oxidoreductases ; ribosomal RNA
    Sprache Englisch
    Erscheinungsverlauf 2023-12
    Umfang p. 18.
    Erscheinungsort BioMed Central
    Dokumenttyp Artikel ; Online
    ISSN 2730-6844
    DOI 10.1186/s12863-023-01119-4
    Datenquelle NAL Katalog (AGRICOLA)

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  2. Artikel ; Online: Mare-MAGE curated reference database of fish mitochondrial genes.

    Kasmi, Yassine / Eschbach, Erik / Hanel, Reinhold

    BMC genomic data

    2023  Band 24, Heft 1, Seite(n) 18

    Abstract: Biodiversity assessment approaches based on molecular biology techniques such as metabarcoding, RAD-seq, or SnaPshot sequencing are increasingly applied in assessing marine and aquatic ecosystems. Here we present a new reference database for fish meta- ... ...

    Abstract Biodiversity assessment approaches based on molecular biology techniques such as metabarcoding, RAD-seq, or SnaPshot sequencing are increasingly applied in assessing marine and aquatic ecosystems. Here we present a new reference database for fish meta-barcoding based on mitochondrial genes. The Mare-MAGE database contains quality-checked sequences of the mitochondrial 12S ribosomal RNA and Cytochrome c Oxidase I gene. All sequences were obtained from the National Center for Biotechnology Information- GenBank (NBCI-GenBank), the European Nucleotide Archive (ENA), AquaGene Database and BOLD database, and have undergone intensive processing. They were checked for false annotations and non-target anomalies, according to the Integrated Taxonomic Information System (ITIS) and FishBase. The dataset is compiled in ARB-Home, FASTA and Qiime2 formats, and is publicly available from the Mare-MAGE database website ( http://mare-mage.weebly.com/ ). It includes altogether 231,333 COI and 12S rRNA gene sequences of fish, covering 19,506 species of 4,058 genera and 586 families.
    Mesh-Begriff(e) Animals ; Databases, Nucleic Acid ; DNA Barcoding, Taxonomic ; Fishes/genetics ; Genes, Mitochondrial
    Sprache Englisch
    Erscheinungsdatum 2023-03-17
    Erscheinungsland England
    Dokumenttyp Journal Article ; Research Support, Non-U.S. Gov't
    ISSN 2730-6844
    ISSN (online) 2730-6844
    DOI 10.1186/s12863-023-01119-4
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  3. Artikel: Rereading the genetic origin of cancer: the puzzle of all eras.

    Abumsimir, Berjas / Al-Qaisi, Talal S / Kasmi, Yassine

    Future science OA

    2022  Band 8, Heft 5, Seite(n) FSO799

    Sprache Englisch
    Erscheinungsdatum 2022-05-12
    Erscheinungsland England
    Dokumenttyp Editorial
    ISSN 2056-5623
    ISSN 2056-5623
    DOI 10.2144/fsoa-2022-0014
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  4. Artikel ; Online: Mare-MAGE curated reference database of fish mitochondrial genes

    Kasmi, Yassine / Eschbach, Erik / Hanel, Reinhold

    2023  

    Abstract: Biodiversity assessment approaches based on molecular biology techniques such as metabarcoding, RAD-seq, or SnaPshot sequencing are increasingly applied in assessing marine and aquatic ecosystems. Here we present a new reference database for fish meta- ... ...

    Abstract Biodiversity assessment approaches based on molecular biology techniques such as metabarcoding, RAD-seq, or SnaPshot sequencing are increasingly applied in assessing marine and aquatic ecosystems. Here we present a new reference database for fish meta-barcoding based on mitochondrial genes. The Mare-MAGE database contains quality-checked sequences of the mitochondrial 12S ribosomal RNA and Cytochrome c Oxidase I gene. All sequences were obtained from the National Center for Biotechnology Information- GenBank (NBCI-GenBank), the European Nucleotide Archive (ENA), AquaGene Database and BOLD database, and have undergone intensive processing. They were checked for false annotations and non-target anomalies, according to the Integrated Taxonomic Information System (ITIS) and FishBase. The dataset is compiled in ARB-Home, FASTA and Qiime2 formats, and is publicly available from the Mare-MAGE database website (http://mare-mage.weebly.com/). It includes altogether 231,333 COI and 12S rRNA gene sequences of fish, covering 19,506 species of 4,058 genera and 586 families.
    Schlagwörter Text ; ddc:020 ; ddc:570 ; Mare-MAGE -- Mitochondrial database -- Fish -- Metabarcoding -- eDNA
    Thema/Rubrik (Code) 590
    Sprache Englisch
    Verlag Springer Science and Business Media LLC
    Erscheinungsland de
    Dokumenttyp Artikel ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

    Volltext online

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  5. Buch ; Online: Mare-MAGE database A curated reference database of fish mitochondrial genes

    Kasmi, Yassine / Eschbach, Erik / Hanel, Reinhold

    2022  

    Abstract: Biodiversity assessment approaches based on molecular biology techniques such as NGS, metabarcoding, RAD-seq, or SnaPshot sequencing, are increasingly used in assessing marine and aquatic ecosystems. In this study, we present a new reference database for ...

    Abstract Biodiversity assessment approaches based on molecular biology techniques such as NGS, metabarcoding, RAD-seq, or SnaPshot sequencing, are increasingly used in assessing marine and aquatic ecosystems. In this study, we present a new reference database for fish meta-barcoding based on mitochondrial genes. The Mare-MAGE database contains quality-checked sequences of the mitochondrial genes for 12S ribosomal RNA and Cytochrome c Oxidase I. All sequences were obtained from the National Center for Biotechnology Information- GenBank (NBCI-GenBank) and the European Nucleotide Archive (ENA) and have undergone intensive processing. They were checked for false annotations and non-target anomalies, according to the Integrated Taxonomic Information System (ITIS) and FishBase. The dataset is compiled in ARB-Home, FASTA and Qiime2 formats, and is publicly available from the Mare-MAGE database website (http://mare-mage.weebly.com/ and https://figshare.com/projects/MARE-MAGE_database_Fish/90917). It includes altogether 231,333 COI and 12S rRNA gene sequences of fish covering 19,506 species of 4,058 genera and 586 families.
    Schlagwörter Other ; ddc:570 ; 70499 Fisheries Sciences not elsewhere classified ; FOS: Agriculture ; forestry and fisheries ; 80604 Database Management ; FOS: Computer and information sciences
    Thema/Rubrik (Code) 590
    Sprache Englisch
    Verlag figshare
    Erscheinungsland de
    Dokumenttyp Buch ; Online
    Datenquelle BASE - Bielefeld Academic Search Engine (Lebenswissenschaftliche Auswahl)

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  6. Artikel: A computational approach to the study of interactions between proteins and miR10-b, miR-335, and miR-21 involved in breast cancer.

    Hammou, Rahma Ait / Kasmi, Yassine / Ennaji, Moulay Mustapha

    Contemporary oncology (Poznan, Poland)

    2019  Band 23, Heft 4, Seite(n) 220–225

    Abstract: MiR-10b, miR-335, and miR-21 are classes of microRNAs (miRNAs) that are overexpressed in breast cancer. Thus, in our study we aimed to test the hypothesis that miRNAs may have direct interactions with proteins and the possibility to inhibit/activate the ... ...

    Abstract MiR-10b, miR-335, and miR-21 are classes of microRNAs (miRNAs) that are overexpressed in breast cancer. Thus, in our study we aimed to test the hypothesis that miRNAs may have direct interactions with proteins and the possibility to inhibit/activate the functional site of proteins and enzymes. For this purpose, we choose three miRNAs involved in breast cancer to study interactions between some proteins and genes, including
    Sprache Englisch
    Erscheinungsdatum 2019-12-30
    Erscheinungsland Poland
    Dokumenttyp Journal Article
    ISSN 1428-2526
    ISSN 1428-2526
    DOI 10.5114/wo.2019.91544
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  7. Artikel ; Online: Evaluation of microalgae polysaccharides as biostimulants of tomato plant defense using metabolomics and biochemical approaches.

    Rachidi, Farid / Benhima, Redouane / Kasmi, Yassine / Sbabou, Laila / Arroussi, Hicham El

    Scientific reports

    2021  Band 11, Heft 1, Seite(n) 930

    Abstract: Microalgal polysaccharides (PSs) may be an effective elicitor agent that can efficiently protect plants against biotic stresses. In this study, wee investigates, the effect of PS obtained from microalgae and cyanobacteria (D. salina MS002, P. tricorontum ...

    Abstract Microalgal polysaccharides (PSs) may be an effective elicitor agent that can efficiently protect plants against biotic stresses. In this study, wee investigates, the effect of PS obtained from microalgae and cyanobacteria (D. salina MS002, P. tricorontum MS023, Porphyridium sp. MS081, Desmodesmus sp., D. salina MS067 and A. platensis MS001) on the biochemical and metabolomics markers linked to defense pathways in tomato plants. The phenylalanine ammonia lyase (PAL), chitinase, 1,3-beta-glucanase and peroxidase (POX) activities have been improved in tomato plants leaves treated by polysaccharides extracted from P. triocnutum (238.26%); Desmodesmus sp. (19.95%); P. triocnutum (137.50%) and Porphyridium sp. (47.28%) respectively. For proteins, polyphenols and H
    Mesh-Begriff(e) Antioxidants/metabolism ; Gas Chromatography-Mass Spectrometry/methods ; Hydrogen Peroxide/metabolism ; Solanum lycopersicum/metabolism ; Solanum lycopersicum/microbiology ; Metabolomics/methods ; Microalgae/metabolism ; Plant Diseases/microbiology ; Plant Immunity/immunology ; Plant Leaves/metabolism ; Polysaccharides/metabolism ; Polysaccharides, Bacterial/metabolism ; Polysaccharides, Bacterial/pharmacology ; Stress, Physiological/physiology
    Chemische Substanzen Antioxidants ; Polysaccharides ; Polysaccharides, Bacterial ; Hydrogen Peroxide (BBX060AN9V)
    Sprache Englisch
    Erscheinungsdatum 2021-01-13
    Erscheinungsland England
    Dokumenttyp Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-020-78820-2
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  8. Artikel ; Online: Chapter 7 Coronaviridae: 100,000 Years of Emergence and Reemergence

    Kasmi, Yassine / Khataby, Khadija / Souiri, Amal / Ennaji, Moulay Mustapha

    Emerging and Reemerging Viral Pathogens

    Abstract: Abstract The coronavirus family (Coronaviridae) is a positive-sense single-stranded RNA, with a size of 27kb. These viruses have a potential species specificity and interspecies transmission. The interspecies transmission of viruses from one host species ...

    Abstract Abstract The coronavirus family (Coronaviridae) is a positive-sense single-stranded RNA, with a size of 27kb. These viruses have a potential species specificity and interspecies transmission. The interspecies transmission of viruses from one host species to another is a major factor responsible for the majority of emerging and reemerging infections. The Coronaviridae is one of the most popular emerging viral families that threaten to the public health.
    Schlagwörter covid19
    Verlag Elsevier; PMC
    Dokumenttyp Artikel ; Online
    DOI 10.1016/b978-0-12-819400-3.00007-7
    Datenquelle COVID19

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  9. Artikel ; Online: Prediction of DNA methylation in the promoter of gene suppressor tumor.

    Saif, Imane / Kasmi, Yassine / Allali, Karam / Ennaji, Moulay Mustapha

    Gene

    2018  Band 651, Seite(n) 166–173

    Abstract: The epigenetics methylation of cytosine is the most common epigenetic form in DNA sequences. It is highly concentrated in the promoter regions of the genes, leading to an inactivation of tumor suppressors regardless of their initial function. In this ... ...

    Abstract The epigenetics methylation of cytosine is the most common epigenetic form in DNA sequences. It is highly concentrated in the promoter regions of the genes, leading to an inactivation of tumor suppressors regardless of their initial function. In this work, we aim to identify the highly methylated regions; the cytosine-phosphate-guanine (CpG) island located on the promoters and/or the first exon gene known for their key roles in the cell cycle, hence the need to study gene-gene interactions. The Frommer and hidden Markov model algorithms are used as computational methods to identify CpG islands with specificity and sensitivity up to 76% and 80%, respectively. The results obtained show, on the one hand, that the genes studied are suspected of developing hypermethylation in the promoter region of the gene involved in the case of a cancer. We then showed that the relative richness in CG results from a high level of methylation. On the other hand, we observe that the gene-gene interaction exhibits co-expression between the chosen genes. This let us to conclude that the hidden Markov model algorithm predicts more specific and valuable information about the hypermethylation in gene as a preventive and diagnostics tools for the personalized medicine; as that the tumor-suppresser-genes have relative co-expression and complementary relations which the hypermethylation affect in the samples studied in our work.
    Mesh-Begriff(e) Algorithms ; Computational Biology/methods ; CpG Islands ; DNA Methylation ; DNA, Neoplasm ; Datasets as Topic ; Epistasis, Genetic ; Genes, Tumor Suppressor ; Humans ; Markov Chains ; Models, Genetic ; Neoplasms/genetics ; Promoter Regions, Genetic
    Chemische Substanzen DNA, Neoplasm
    Sprache Englisch
    Erscheinungsdatum 2018-04-20
    Erscheinungsland Netherlands
    Dokumenttyp Evaluation Studies ; Journal Article
    ZDB-ID 391792-7
    ISSN 1879-0038 ; 0378-1119
    ISSN (online) 1879-0038
    ISSN 0378-1119
    DOI 10.1016/j.gene.2018.01.082
    Datenquelle MEDical Literature Analysis and Retrieval System OnLINE

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  10. Artikel ; Online: Coronaviridae: 100,000 Years of Emergence and Reemergence

    Kasmi, Yassine / Khataby, Khadija / Souiri, Amal / Ennaji, Moulay Mustapha

    Emerging and Reemerging Viral Pathogens

    Abstract: The coronavirus family (Coronaviridae) is a positive-sense single-stranded RNA, with a size of 27 kb. These viruses have a potential species specificity and interspecies transmission. The interspecies transmission of viruses from one host species to ... ...

    Abstract The coronavirus family (Coronaviridae) is a positive-sense single-stranded RNA, with a size of 27 kb. These viruses have a potential species specificity and interspecies transmission. The interspecies transmission of viruses from one host species to another is a major factor responsible for the majority of emerging and reemerging infections. The Coronaviridae is one of the most popular emerging viral families that threaten to the public health.
    Schlagwörter covid19
    Verlag Elsevier; PMC
    Dokumenttyp Artikel ; Online
    DOI 10.1016/b978-0-12-819400-3.00007-7
    Datenquelle COVID19

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