LIVIVO - The Search Portal for Life Sciences

zur deutschen Oberfläche wechseln
Advanced search

Search results

Result 1 - 10 of total 20

Search options

  1. Article: Omics in the Red Palm Weevil

    Manee, Manee M / Alqahtani, Fahad H / Al-Shomrani, Badr M / El-Shafie, Hamadttu A F / Dias, Guilherme B

    Insects

    2023  Volume 14, Issue 3

    Abstract: The red palm weevil (RPW), ...

    Abstract The red palm weevil (RPW),
    Language English
    Publishing date 2023-03-04
    Publishing country Switzerland
    Document type Journal Article ; Review
    ZDB-ID 2662247-6
    ISSN 2075-4450
    ISSN 2075-4450
    DOI 10.3390/insects14030255
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  2. Article ; Online: Genome-wide characterization of simple sequence repeats in Palmae genomes.

    Manee, Manee M / Al-Shomrani, Badr M / Al-Fageeh, Mohamed B

    Genes & genomics

    2020  Volume 42, Issue 5, Page(s) 597–608

    Abstract: Background: Microsatellites or simple sequence repeats (SSRs) have become the most significant DNA marker technology used in genetic research. The availability of complete draft genomes for a number of Palmae species has made it possible to perform ... ...

    Abstract Background: Microsatellites or simple sequence repeats (SSRs) have become the most significant DNA marker technology used in genetic research. The availability of complete draft genomes for a number of Palmae species has made it possible to perform genome-wide analysis of SSRs in these species. Palm trees are tropical and subtropical plants with agricultural and economic importance due to the nutritional value of their fruit cultivars.
    Objective: This is the first comprehensive study examining and comparing microsatellites in completely-sequenced draft genomes of Palmae species.
    Methods: We identified and compared perfect SSRs with 1-6 bp nucleotide motifs to characterize microsatellites in Palmae species using PERF v0.2.5. We analyzed their relative abundance, relative density, and GC content in five palm species: Phoenix dactylifera, Cocos nucifera, Calamus simplicifolius, Elaeis oleifera, and Elaeis guineensis.
    Results: A total of 118241, 328189, 450753, 176608, and 70694 SSRs were identified, respectively. The six repeat types were not evenly distributed across the five genomes. Mono- and dinucleotide SSRs were the most abundant, and GC content was highest in tri- and hexanucleotide SSRs.
    Conclusion: We envisage that this analysis would further substantiate more in-depth computational, biochemical, and molecular studies on the roles SSRs may play in the genome organization of the palm species. The current study contributes a detailed characterization of simple sequence repeats in palm genomes.
    MeSH term(s) Arecaceae/classification ; Arecaceae/genetics ; Genome, Plant ; Microsatellite Repeats ; Phylogeny
    Language English
    Publishing date 2020-04-03
    Publishing country Korea (South)
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2504587-8
    ISSN 2092-9293 ; 1976-9571
    ISSN (online) 2092-9293
    ISSN 1976-9571
    DOI 10.1007/s13258-020-00924-w
    Database MEDical Literature Analysis and Retrieval System OnLINE

    Full text online

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  3. Article ; Online: Microsatellite Variation in the Most Devastating Beetle Pests (Coleoptera: Curculionidae) of Agricultural and Forest Crops.

    Manee, Manee M / Al-Shomrani, Badr M / Altammami, Musaad A / El-Shafie, Hamadttu A F / Alsayah, Atheer A / Alhoshani, Fahad M / Alqahtani, Fahad H

    International journal of molecular sciences

    2022  Volume 23, Issue 17

    Abstract: Weevils, classified in the family Curculionidae (true weevils), constitute a group of phytophagous insects of which many species are considered significant pests of crops. Within this family, the red palm weevil (RPW), ...

    Abstract Weevils, classified in the family Curculionidae (true weevils), constitute a group of phytophagous insects of which many species are considered significant pests of crops. Within this family, the red palm weevil (RPW),
    MeSH term(s) Animals ; Base Composition ; Coleoptera/genetics ; Forests ; Humans ; Mammals/genetics ; Microsatellite Repeats/genetics ; Weevils/genetics
    Language English
    Publishing date 2022-08-30
    Publishing country Switzerland
    Document type Journal Article
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms23179847
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  4. Article ; Online: On the Prevalence and Potential Functionality of an Intrinsic Disorder in the MERS-CoV Proteome.

    Alshehri, Manal A / Manee, Manee M / Alqahtani, Fahad H / Al-Shomrani, Badr M / Uversky, Vladimir N

    Viruses

    2021  Volume 13, Issue 2

    Abstract: Middle East respiratory syndrome is a severe respiratory illness caused by an infectious coronavirus. This virus is associated with a high mortality rate, but there is as of yet no effective vaccine or antibody available for human immunity/treatment. ... ...

    Abstract Middle East respiratory syndrome is a severe respiratory illness caused by an infectious coronavirus. This virus is associated with a high mortality rate, but there is as of yet no effective vaccine or antibody available for human immunity/treatment. Drug design relies on understanding the 3D structures of viral proteins; however, arriving at such understanding is difficult for intrinsically disordered proteins, whose disorder-dependent functions are key to the virus's biology. Disorder is suggested to provide viral proteins with highly flexible structures and diverse functions that are utilized when invading host organisms and adjusting to new habitats. To date, the functional roles of intrinsically disordered proteins in the mechanisms of MERS-CoV pathogenesis, transmission, and treatment remain unclear. In this study, we performed structural analysis to evaluate the abundance of intrinsic disorder in the MERS-CoV proteome and in individual proteins derived from the MERS-CoV genome. Moreover, we detected disordered protein binding regions, namely, molecular recognition features and short linear motifs. Studying disordered proteins/regions in MERS-CoV could contribute to unlocking the complex riddles of viral infection, exploitation strategies, and drug development approaches in the near future by making it possible to target these important (yet challenging) unstructured regions.
    MeSH term(s) Coronavirus Infections/virology ; Databases, Protein ; Humans ; Intrinsically Disordered Proteins/chemistry ; Middle East Respiratory Syndrome Coronavirus/immunology ; Protein Domains ; Viral Nonstructural Proteins/chemistry
    Chemical Substances Intrinsically Disordered Proteins ; Viral Nonstructural Proteins
    Language English
    Publishing date 2021-02-22
    Publishing country Switzerland
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2516098-9
    ISSN 1999-4915 ; 1999-4915
    ISSN (online) 1999-4915
    ISSN 1999-4915
    DOI 10.3390/v13020339
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  5. Article ; Online: Omics in the Red Palm Weevil Rhynchophorus ferrugineus (Olivier) (Coleoptera

    Manee M. Manee / Fahad H. Alqahtani / Badr M. Al-Shomrani / Hamadttu A. F. El-Shafie / Guilherme B. Dias

    Insects, Vol 14, Iss 255, p

    Curculionidae): A Bridge to the Pest

    2023  Volume 255

    Abstract: The red palm weevil (RPW), Rhynchophorus ferrugineus (Coleoptera: Curculionidae), is the most devastating pest of palm trees worldwide. Mitigation of the economic and biodiversity impact it causes is an international priority that could be greatly aided ... ...

    Abstract The red palm weevil (RPW), Rhynchophorus ferrugineus (Coleoptera: Curculionidae), is the most devastating pest of palm trees worldwide. Mitigation of the economic and biodiversity impact it causes is an international priority that could be greatly aided by a better understanding of its biology and genetics. Despite its relevance, the biology of the RPW remains poorly understood, and research on management strategies often focuses on outdated empirical methods that produce sub-optimal results. With the development of omics approaches in genetic research, new avenues for pest control are becoming increasingly feasible. For example, genetic engineering approaches become available once a species’s target genes are well characterized in terms of their sequence, but also population variability, epistatic interactions, and more. In the last few years alone, there have been major advances in omics studies of the RPW. Multiple draft genomes are currently available, along with short and long-read transcriptomes, and metagenomes, which have facilitated the identification of genes of interest to the RPW scientific community. This review describes omics approaches previously applied to RPW research, highlights findings that could be impactful for pest management, and emphasizes future opportunities and challenges in this area of research.
    Keywords red palm weevil ; insect pests ; draft genome ; transcriptomics ; metagenomics ; Science ; Q
    Language English
    Publishing date 2023-03-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    Full text online

    More links

    Kategorien

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

  6. Article ; Online: Genomic Analysis of Intrinsically Disordered Proteins in the Genus

    Alshehri, Manal A / Manee, Manee M / Al-Fageeh, Mohamed B / Al-Shomrani, Badr M

    International journal of molecular sciences

    2020  Volume 21, Issue 11

    Abstract: Intrinsically disordered proteins/regions (IDPs/IDRs) fail to fold completely into 3D structures, but have major roles in determining protein function. While natively disordered proteins/regions have been found to fulfill a wide variety of primary ... ...

    Abstract Intrinsically disordered proteins/regions (IDPs/IDRs) fail to fold completely into 3D structures, but have major roles in determining protein function. While natively disordered proteins/regions have been found to fulfill a wide variety of primary cellular roles, the functions of many disordered proteins in numerous species remain to be uncovered. Here, we perform the first large-scale study of IDPs/IDRs in the genus
    MeSH term(s) Animals ; Camelus ; Computational Biology ; Genome ; Genomics ; Humans ; Intrinsically Disordered Proteins/chemistry ; Intrinsically Disordered Proteins/genetics ; Protein Conformation ; Proteome/metabolism ; Proteomics ; Species Specificity
    Chemical Substances Intrinsically Disordered Proteins ; Proteome
    Language English
    Publishing date 2020-06-03
    Publishing country Switzerland
    Document type Comparative Study ; Journal Article
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms21114010
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  7. Article ; Online: Genome-wide comparative analysis of transposable elements in Palmae genomes.

    Ibrahim, Mohanad A / Al-Shomrani, Badr M / Alharbi, Sultan N / Elliott, Tyler A / Alsuabeyl, Mohammed S / Alqahtani, Fahad H / Manee, Manee M

    Frontiers in bioscience (Landmark edition)

    2021  Volume 26, Issue 11, Page(s) 1119–1131

    Abstract: ... ...

    Abstract Background
    MeSH term(s) DNA Transposable Elements/genetics ; Evolution, Molecular ; Retroelements/genetics
    Chemical Substances DNA Transposable Elements ; Retroelements
    Language English
    Publishing date 2021-11-17
    Publishing country Singapore
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2704569-9
    ISSN 2768-6698 ; 1093-9946
    ISSN (online) 2768-6698
    ISSN 1093-9946
    DOI 10.52586/5014
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  8. Article ; Online: Comparative analysis of transposable elements provides insights into genome evolution in the genus Camelus.

    Ibrahim, Mohanad A / Al-Shomrani, Badr M / Simenc, Mathew / Alharbi, Sultan N / Alqahtani, Fahad H / Al-Fageeh, Mohamed B / Manee, Manee M

    BMC genomics

    2021  Volume 22, Issue 1, Page(s) 842

    Abstract: Background: Transposable elements (TEs) are common features in eukaryotic genomes that are known to affect genome evolution critically and to play roles in gene regulation. Vertebrate genomes are dominated by TEs, which can reach copy numbers in the ... ...

    Abstract Background: Transposable elements (TEs) are common features in eukaryotic genomes that are known to affect genome evolution critically and to play roles in gene regulation. Vertebrate genomes are dominated by TEs, which can reach copy numbers in the hundreds of thousands. To date, details regarding the presence and characteristics of TEs in camelid genomes have not been made available.
    Results: We conducted a genome-wide comparative analysis of camelid TEs, focusing on the identification of TEs and elucidation of transposition histories in four species: Camelus dromedarius, C. bactrianus, C. ferus, and Vicugna pacos. Our TE library was created using both de novo structure-based and homology-based searching strategies ( https://github.com/kacst-bioinfo-lab/TE_ideintification_pipeline ). Annotation results indicated a similar proportion of each genomes comprising TEs (35-36%). Class I LTR retrotransposons comprised 16-20% of genomes, and mostly consisted of the endogenous retroviruses (ERVs) groups ERVL, ERVL-MaLR, ERV_classI, and ERV_classII. Non-LTR elements comprised about 12% of genomes and consisted of SINEs (MIRs) and the LINE superfamilies LINE1, LINE2, L3/CR1, and RTE clades. Least represented were the Class II DNA transposons (2%), consisting of hAT-Charlie, TcMar-Tigger, and Helitron elements and comprising about 1-2% of each genome.
    Conclusions: The findings of the present study revealed that the distribution of transposable elements across camelid genomes is approximately similar. This investigation presents a characterization of TE content in four camelid to contribute to developing a better understanding of camelid genome architecture and evolution.
    MeSH term(s) Animals ; Camelus ; DNA Transposable Elements/genetics ; Evolution, Molecular ; Retroelements/genetics ; Short Interspersed Nucleotide Elements
    Chemical Substances DNA Transposable Elements ; Retroelements
    Language English
    Publishing date 2021-11-20
    Publishing country England
    Document type Journal Article
    ZDB-ID 2041499-7
    ISSN 1471-2164 ; 1471-2164
    ISSN (online) 1471-2164
    ISSN 1471-2164
    DOI 10.1186/s12864-021-08117-9
    Database MEDical Literature Analysis and Retrieval System OnLINE

    More links

    Kategorien

    Order via subito

    This service is chargeable due to the Delivery terms set by subito. Orders including an article and supplementary material will be classified as separate orders. In these cases, fees will be demanded for each order.

  9. Article ; Online: Genomic Analysis of Intrinsically Disordered Proteins in the Genus Camelus

    Manal A. Alshehri / Manee M. Manee / Mohamed B. Al-Fageeh / Badr M. Al-Shomrani

    International Journal of Molecular Sciences, Vol 21, Iss 4010, p

    2020  Volume 4010

    Abstract: Intrinsically disordered proteins/regions (IDPs/IDRs) fail to fold completely into 3D structures, but have major roles in determining protein function. While natively disordered proteins/regions have been found to fulfill a wide variety of primary ... ...

    Abstract Intrinsically disordered proteins/regions (IDPs/IDRs) fail to fold completely into 3D structures, but have major roles in determining protein function. While natively disordered proteins/regions have been found to fulfill a wide variety of primary cellular roles, the functions of many disordered proteins in numerous species remain to be uncovered. Here, we perform the first large-scale study of IDPs/IDRs in the genus Camelus , one of the most important mammalians in Asia and North Africa, in order to explore the biological roles of these proteins. The study includes the prediction of disordered proteins/regions in Camelus species and in humans using multiple state-of-the-art prediction tools. Additionally, we provide a comparative analysis of Camelus and Homo sapiens IDPs/IDRs for the sake of highlighting the distinctive use of disorder in each genus. Our findings indicate that the human proteome is more disordered than the Camelus proteome. Gene Ontology analysis also revealed that Camelus IDPs are enriched in glutathione catabolism and lactose biosynthesis.
    Keywords disoredered proteins ; Camelus ; disorder prediction ; GO ; Biology (General) ; QH301-705.5 ; Chemistry ; QD1-999
    Subject code 612
    Language English
    Publishing date 2020-06-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    Full text online

    More links

    Kategorien

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

  10. Article ; Online: Microsatellite Variation in the Most Devastating Beetle Pests (Coleoptera

    Manee M. Manee / Badr M. Al-Shomrani / Musaad A. Altammami / Hamadttu A. F. El-Shafie / Atheer A. Alsayah / Fahad M. Alhoshani / Fahad H. Alqahtani

    International Journal of Molecular Sciences, Vol 23, Iss 9847, p

    Curculionidae) of Agricultural and Forest Crops

    2022  Volume 9847

    Abstract: Weevils, classified in the family Curculionidae (true weevils), constitute a group of phytophagous insects of which many species are considered significant pests of crops. Within this family, the red palm weevil (RPW), Rhynchophorus ferrugineus , has an ... ...

    Abstract Weevils, classified in the family Curculionidae (true weevils), constitute a group of phytophagous insects of which many species are considered significant pests of crops. Within this family, the red palm weevil (RPW), Rhynchophorus ferrugineus , has an integral role in destroying crops and has invaded all countries of the Middle East and many in North Africa, Southern Europe, Southeast Asia, Oceania, and the Caribbean Islands. Simple sequence repeats (SSRs), also termed microsatellites, have become the DNA marker technology most applied to study population structure, evolution, and genetic diversity. Although these markers have been widely examined in many mammalian and plant species, and draft genome assemblies are available for many species of true weevils, very little is yet known about SSRs in weevil genomes. Here we carried out a comparative analysis examining and comparing the relative abundance, relative density, and GC content of SSRs in previously sequenced draft genomes of nine true weevils, with an emphasis on R. ferrugineus . We also used Illumina paired-end sequencing to generate draft sequence for adult female RPW and characterized it in terms of perfect SSRs with 1–6 bp nucleotide motifs. Among weevil genomes, mono- to trinucleotide SSRs were the most frequent, and mono-, di-, and hexanucleotide SSRs exhibited the highest GC content. In these draft genomes, SSR number and genome size were significantly correlated. This work will aid our understanding of the genome architecture and evolution of Curculionidae weevils and facilitate exploring SSR molecular marker development in these species.
    Keywords curculionidae ; red palm weevil ; microsatellite ; genome assembly ; SSR abundance ; Biology (General) ; QH301-705.5 ; Chemistry ; QD1-999
    Subject code 590
    Language English
    Publishing date 2022-08-01T00:00:00Z
    Publisher MDPI AG
    Document type Article ; Online
    Database BASE - Bielefeld Academic Search Engine (life sciences selection)

    Full text online

    More links

    Kategorien

    Inter-library loan at ZB MED

    Your chosen title can be delivered directly to ZB MED Cologne location if you are registered as a user at ZB MED Cologne.

To top