LIVIVO - The Search Portal for Life Sciences

zur deutschen Oberfläche wechseln
Advanced search

Search results

Result 1 - 10 of total 144

Search options

  1. Article ; Online: Anticodon table of the chloroplast genome and identification of putative quadruplet anticodons in chloroplast tRNAs.

    Mohanta, Tapan Kumar / Mohanta, Yugal Kishore / Sharma, Nanaocha

    Scientific reports

    2023  Volume 13, Issue 1, Page(s) 760

    Abstract: The chloroplast genome of 5959 species was analyzed to construct the anticodon table of the chloroplast genome. Analysis of the chloroplast transfer ribonucleic acid (tRNA) revealed the presence of a putative quadruplet anticodon containing tRNAs in the ... ...

    Abstract The chloroplast genome of 5959 species was analyzed to construct the anticodon table of the chloroplast genome. Analysis of the chloroplast transfer ribonucleic acid (tRNA) revealed the presence of a putative quadruplet anticodon containing tRNAs in the chloroplast genome. The tRNAs with putative quadruplet anticodons were UAUG, UGGG, AUAA, GCUA, and GUUA, where the GUUA anticodon putatively encoded tRNA
    MeSH term(s) Anticodon/genetics ; Genome, Chloroplast ; Base Sequence ; RNA, Transfer/genetics ; Chloroplasts/genetics
    Chemical Substances Anticodon ; RNA, Transfer (9014-25-9)
    Language English
    Publishing date 2023-01-14
    Publishing country England
    Document type Journal Article
    ZDB-ID 2615211-3
    ISSN 2045-2322 ; 2045-2322
    ISSN (online) 2045-2322
    ISSN 2045-2322
    DOI 10.1038/s41598-023-27886-9
    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.

  2. Article: Editorial: Structural variation of the chloroplast genome and related bioinformatics tools.

    Shi, Linchun / Zhang, Gang / Mohanta, Tapan Kumar / Kong, Weijun / Duan, Baozhong

    Frontiers in plant science

    2024  Volume 15, Page(s) 1341528

    Language English
    Publishing date 2024-04-08
    Publishing country Switzerland
    Document type Editorial
    ZDB-ID 2613694-6
    ISSN 1664-462X
    ISSN 1664-462X
    DOI 10.3389/fpls.2024.1341528
    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.

  3. Article ; Online: Physiology, genomics, and evolutionary aspects of desert plants.

    Mohanta, Tapan Kumar / Mohanta, Yugal Kishore / Kaushik, Prashant / Kumar, Jitesh

    Journal of advanced research

    2023  Volume 58, Page(s) 63–78

    Abstract: Background: Despite the exposure to arid environmental conditions across the globe ultimately hampering the sustainability of the living organism, few plant species are equipped with several unique genotypic, biochemical, and physiological features to ... ...

    Abstract Background: Despite the exposure to arid environmental conditions across the globe ultimately hampering the sustainability of the living organism, few plant species are equipped with several unique genotypic, biochemical, and physiological features to counter such harsh conditions. Physiologically, they have evolved with reduced leaf size, spines, waxy cuticles, thick leaves, succulent hydrenchyma, sclerophyll, chloroembryo, and photosynthesis in nonfoliar and other parts. At the biochemical level, they are evolved to perform efficient photosynthesis through Crassulacean acid metabolism (CAM) and C4 pathways with the formation of oxaloacetic acid (Hatch-Slack pathway) instead of the C3 pathway. Additionally, comparative genomics with existing data provides ample evidence of the xerophytic plants' positive selection to adapt to the arid environment. However, adding more high-throughput sequencing of xerophyte plant species is further required for a comparative genomic study toward trait discovery related to survival. Learning from the mechanism to survive in harsh conditions could pave the way to engineer crops for future sustainable agriculture.
    Aim of the review: The distinct physiology of desert plants allows them to survive in harsh environments. However, the genomic composition also contributes significantly to this and requires great attention. This review emphasizes the physiological and genomic adaptation of desert plants. Other important parameters, such as desert biodiversity and photosynthetic strategy, are also discussed with recent progress in the field. Overall, this review discusses the different features of desert plants, which prepares them for harsh conditions intending to translate knowledge to engineer plant species for sustainable agriculture.
    Key scientific concepts of review: This review comprehensively presents the physiology, molecular mechanism, and genomics of desert plants aimed towards engineering a sustainable crop.
    MeSH term(s) Biological Evolution ; Plants/metabolism ; Photosynthesis ; Plant Leaves/metabolism ; Genomics
    Language English
    Publishing date 2023-05-07
    Publishing country Egypt
    Document type Journal Article ; Review
    ZDB-ID 2541849-X
    ISSN 2090-1224 ; 2090-1224
    ISSN (online) 2090-1224
    ISSN 2090-1224
    DOI 10.1016/j.jare.2023.04.019
    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: Correction: Analysis and Interpretation of Metagenomics Data: An Approach.

    Navgire, Gauri S / Goel, Neha / Sawhney, Gifty / Sharma, Mohit / Kaushik, Prashant / Mohanta, Yugal Kishore / Mohanta, Tapan Kumar / Al-Harrasi, Ahmed

    Biological procedures online

    2024  Volume 26, Issue 1, Page(s) 8

    Language English
    Publishing date 2024-04-04
    Publishing country England
    Document type Published Erratum
    ZDB-ID 2027823-8
    ISSN 1480-9222
    ISSN 1480-9222
    DOI 10.1186/s12575-024-00235-4
    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: FungiProteomeDB: a database for the molecular weight and isoelectric points of the fungal proteomes.

    Rashid, Muhammad / Omar, Muhammad / Mohanta, Tapan Kumar

    Database : the journal of biological databases and curation

    2023  Volume 2023

    Abstract: Proteins' molecular weight (MW) and isoelectric point (pI) are crucial for their subcellular localization and subsequent function. These are also useful in 2D gel electrophoresis, liquid chromatography-mass spectrometry and X-ray protein crystallography. ...

    Abstract Proteins' molecular weight (MW) and isoelectric point (pI) are crucial for their subcellular localization and subsequent function. These are also useful in 2D gel electrophoresis, liquid chromatography-mass spectrometry and X-ray protein crystallography. Moreover, visualizations like a virtual 2D proteome map of pI vs. MW are worthwhile to discuss the proteome diversity among different species. Although the genome sequence data of the fungi kingdom improved enormously, the proteomic details have been poorly elaborated. Therefore, we have calculated the MW and pI of the fungi proteins and reported them in, FungiProteomeDB, an online database (DB) https://vision4research.com/fungidb/. We analyzed the proteome of 685 fungal species that contain 7 127 141 protein sequences. The DB provides an easy-to-use and efficient interface for various search options, summary statistics and virtual 2D proteome map visualizations. The MW and pI of a protein can be obtained by searching the name of a protein, a keyword or a list of accession numbers. It also allows querying protein sequences. The DB will be helpful in hypothesis formulation and in various biotechnological applications. Database URL https://vision4research.com/fungidb/.
    MeSH term(s) Isoelectric Point ; Proteome/genetics ; Proteome/chemistry ; Proteomics/methods ; Molecular Weight ; Electrophoresis, Gel, Two-Dimensional/methods
    Chemical Substances Proteome
    Language English
    Publishing date 2023-03-17
    Publishing country England
    Document type Journal Article
    ZDB-ID 2496706-3
    ISSN 1758-0463 ; 1758-0463
    ISSN (online) 1758-0463
    ISSN 1758-0463
    DOI 10.1093/database/baad004
    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.

  6. Article: Decoding the Virtual 2D Map of the Chloroplast Proteomes.

    Mohanta, Tapan Kumar / Mohanta, Yugal Kishore / Al-Harrasi, Ahmed

    Biological procedures online

    2022  Volume 24, Issue 1, Page(s) 23

    Abstract: Background: The chloroplast is a semi-autonomous organelle having its own genome and corresponding proteome. Although chloroplast genomes have been reported, no reports exist on their corresponding proteomes. Therefore, a proteome-wide analysis of the ... ...

    Abstract Background: The chloroplast is a semi-autonomous organelle having its own genome and corresponding proteome. Although chloroplast genomes have been reported, no reports exist on their corresponding proteomes. Therefore, a proteome-wide analysis of the chloroplast proteomes of 2893 species was conducted, and a virtual 2D map was constructed.
    Results: The resulting virtual 2D map of the chloroplast proteome exhibited a bimodal distribution. The molecular mass of the chloroplast proteome ranged from 0.448 to 616.334 kDa, and the isoelectric point (pI) ranged from 2.854 to 12.954. Chloroplast proteomes were dominated by basic pI proteins with an average pI of 7.852. The molecular weight and isoelectric point of chloroplast proteome were found to show bimodal distribution. Leu was the most abundant and Cys the least abundant amino acid in the chloroplast proteome. Notably, Trp amino acid was absent in the chloroplast protein sequences of Pilostyles aethiopica. In addition, Selenocysteine (Sec) and Pyrrolysine (Pyl) amino acids were also found to be lacking in the chloroplast proteomes.
    Conclusion: The virtual 2D map and amino acid composition of chloroplast proteome will enable the researchers to understand the biochemistry of chloroplast protein in detail. Further, the amino acid composition of the chloroplast proteome will also allow us to understand the codon usage bias. The codon usage bias and amino acid usage bias of chloroplast will be crucial to understanding their relationship.
    Language English
    Publishing date 2022-12-13
    Publishing country England
    Document type Journal Article
    ZDB-ID 2027823-8
    ISSN 1480-9222
    ISSN 1480-9222
    DOI 10.1186/s12575-022-00186-8
    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: Fungi contain genes associated with flavonoid biosynthesis pathway

    Mohanta, Tapan Kumar

    Journal of functional foods. 2020 May, v. 68

    2020  

    Abstract: Mushroom is a fruiting body of fungi and hence it contains all the genomic architecture of its genome. The genomic architecture of the fruiting body is not separated from its mycelia. A manuscript by Alicia Gil-Ramirez entitled “Mushroom don't contain ... ...

    Abstract Mushroom is a fruiting body of fungi and hence it contains all the genomic architecture of its genome. The genomic architecture of the fruiting body is not separated from its mycelia. A manuscript by Alicia Gil-Ramirez entitled “Mushroom don't contain flavonoids” published by “Journal of Functional Foods” vol. 25, August 2016, page 1–13 (https://doi.org/10.1016/j.jff.2016.05.005) has exclusively mentioned in the abstract section that “no sequences encoding chalcone synthase or chalcone isomerase (key enzyme involved in the flavonoid biosynthetic pathway) were found in the genomic databases even in completely sequenced mushrooms indicating that they do not have the enzyme needed for their production”.
    Keywords biosynthesis ; flavonoids ; fruiting bodies ; functional foods ; genes ; genomics ; mushrooms ; mycelium
    Language English
    Dates of publication 2020-05
    Publishing place Elsevier Ltd
    Document type Article
    ZDB-ID 2511964-3
    ISSN 1756-4646
    ISSN 1756-4646
    DOI 10.1016/j.jff.2020.103910
    Database NAL-Catalogue (AGRICOLA)

    More links

    Kategorien

    In stock of ZB MED Bonn / Germany

    Z 7830: Show issues

    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.

    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.

  8. Article ; Online: The 3D Genome: From Structure to Function.

    Mohanta, Tapan Kumar / Mishra, Awdhesh Kumar / Al-Harrasi, Ahmed

    International journal of molecular sciences

    2021  Volume 22, Issue 21

    Abstract: The genome is the most functional part of a cell, and genomic contents are organized in a compact three-dimensional (3D) structure. The genome contains millions of nucleotide bases organized in its proper frame. Rapid development in genome sequencing and ...

    Abstract The genome is the most functional part of a cell, and genomic contents are organized in a compact three-dimensional (3D) structure. The genome contains millions of nucleotide bases organized in its proper frame. Rapid development in genome sequencing and advanced microscopy techniques have enabled us to understand the 3D spatial organization of the genome. Chromosome capture methods using a ligation approach and the visualization tool of a 3D genome browser have facilitated detailed exploration of the genome. Topologically associated domains (TADs), lamin-associated domains, CCCTC-binding factor domains, cohesin, and chromatin structures are the prominent identified components that encode the 3D structure of the genome. Although TADs are the major contributors to 3D genome organization, they are absent in
    MeSH term(s) Animals ; CCCTC-Binding Factor/genetics ; Cell Cycle Proteins/genetics ; Chromatin/genetics ; Chromosomal Proteins, Non-Histone/genetics ; Chromosomes/genetics ; Genome/genetics ; Genomics/methods ; Humans ; Lamins/genetics ; Plants/genetics ; Cohesins
    Chemical Substances CCCTC-Binding Factor ; Cell Cycle Proteins ; Chromatin ; Chromosomal Proteins, Non-Histone ; Lamins
    Language English
    Publishing date 2021-10-27
    Publishing country Switzerland
    Document type Journal Article ; Review
    ZDB-ID 2019364-6
    ISSN 1422-0067 ; 1422-0067 ; 1661-6596
    ISSN (online) 1422-0067
    ISSN 1422-0067 ; 1661-6596
    DOI 10.3390/ijms222111585
    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: Virtual 2D map of cyanobacterial proteomes.

    Mohanta, Tapan Kumar / Mohanta, Yugal Kishore / Avula, Satya Kumar / Nongbet, Amilia / Al-Harrasi, Ahmed

    PloS one

    2022  Volume 17, Issue 10, Page(s) e0275148

    Abstract: Cyanobacteria are prokaryotic Gram-negative organisms prevalent in nearly all habitats. A detailed proteomics study of Cyanobacteria has not been conducted despite extensive study of their genome sequences. Therefore, we conducted a proteome-wide ... ...

    Abstract Cyanobacteria are prokaryotic Gram-negative organisms prevalent in nearly all habitats. A detailed proteomics study of Cyanobacteria has not been conducted despite extensive study of their genome sequences. Therefore, we conducted a proteome-wide analysis of the Cyanobacteria proteome and found Calothrix desertica as the largest (680331.825 kDa) and Candidatus synechococcus spongiarum as the smallest (42726.77 kDa) proteome of the cyanobacterial kingdom. A Cyanobacterial proteome encodes 312.018 amino acids per protein, with a molecular weight of 182173.1324 kDa per proteome. The isoelectric point (pI) of the Cyanobacterial proteome ranges from 2.13 to 13.32. It was found that the Cyanobacterial proteome encodes a greater number of acidic-pI proteins, and their average pI is 6.437. The proteins with higher pI are likely to contain repetitive amino acids. A virtual 2D map of Cyanobacterial proteome showed a bimodal distribution of molecular weight and pI. Several proteins within the Cyanobacterial proteome were found to encode Selenocysteine (Sec) amino acid, while Pyrrolysine amino acids were not detected. The study can enable us to generate a high-resolution cell map to monitor proteomic dynamics. Through this computational analysis, we can gain a better understanding of the bias in codon usage by analyzing the amino acid composition of the Cyanobacterial proteome.
    MeSH term(s) Isoelectric Point ; Proteome/metabolism ; Proteomics ; Selenocysteine ; Synechococcus/genetics ; Synechococcus/metabolism
    Chemical Substances Proteome ; Selenocysteine (0CH9049VIS)
    Language English
    Publishing date 2022-10-03
    Publishing country United States
    Document type Journal Article ; Research Support, Non-U.S. Gov't
    ZDB-ID 2267670-3
    ISSN 1932-6203 ; 1932-6203
    ISSN (online) 1932-6203
    ISSN 1932-6203
    DOI 10.1371/journal.pone.0275148
    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.

  10. Article ; Online: Exploring Dose-Dependent Cytotoxicity Profile of

    Mohanta, Yugal Kishore / Mishra, Awdhesh Kumar / Nayak, Debasis / Patra, Biswajit / Bratovcic, Amra / Avula, Satya Kumar / Mohanta, Tapan Kumar / Murugan, Kadarkarai / Saravanan, Muthupandian

    Oxidative medicine and cellular longevity

    2022  Volume 2022, Page(s) 3863138

    Abstract: Green-based synthesis of metal nanoparticles using marine seaweeds is a rapidly growing technology that is finding a variety of new applications. In the present study, the aqueous extract of a marine seaweed, ...

    Abstract Green-based synthesis of metal nanoparticles using marine seaweeds is a rapidly growing technology that is finding a variety of new applications. In the present study, the aqueous extract of a marine seaweed,
    MeSH term(s) Anti-Bacterial Agents/pharmacology ; Antineoplastic Agents/pharmacology ; Antioxidants/pharmacology ; Bacteria/drug effects ; Breast Neoplasms/metabolism ; Breast Neoplasms/pathology ; Cell Line, Tumor ; Cell Survival/drug effects ; Drug Delivery Systems/methods ; Female ; Gracilaria/chemistry ; Green Chemistry Technology/methods ; Humans ; Metal Nanoparticles/chemistry ; Microbial Sensitivity Tests ; Particle Size ; Phytochemicals/pharmacology ; Plant Extracts/pharmacology ; Seaweed/chemistry ; Silver/chemistry
    Chemical Substances Anti-Bacterial Agents ; Antineoplastic Agents ; Antioxidants ; Phytochemicals ; Plant Extracts ; Silver (3M4G523W1G)
    Language English
    Publishing date 2022-02-24
    Publishing country United States
    Document type Journal Article
    ZDB-ID 2455981-7
    ISSN 1942-0994 ; 1942-0994
    ISSN (online) 1942-0994
    ISSN 1942-0994
    DOI 10.1155/2022/3863138
    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.

To top