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      Nematode chromosomes

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          Abstract

          The nematode Caenorhabditis elegans has shed light on many aspects of eukaryotic biology, including genetics, development, cell biology, and genomics. A major factor in the success of C. elegans as a model organism has been the availability, since the late 1990s, of an essentially gap-free and well-annotated nuclear genome sequence, divided among 6 chromosomes. In this review, we discuss the structure, function, and biology of C. elegans chromosomes and then provide a general perspective on chromosome biology in other diverse nematode species. We highlight malleable chromosome features including centromeres, telomeres, and repetitive elements, as well as the remarkable process of programmed DNA elimination (historically described as chromatin diminution) that induces loss of portions of the genome in somatic cells of a handful of nematode species. An exciting future prospect is that nematode species may enable experimental approaches to study chromosome features and to test models of chromosome evolution. In the long term, fundamental insights regarding how speciation is integrated with chromosome biology may be revealed.

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          Most cited references274

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          BUSCO: assessing genome assembly and annotation completeness with single-copy orthologs.

          Genomics has revolutionized biological research, but quality assessment of the resulting assembled sequences is complicated and remains mostly limited to technical measures like N50.
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            Initial sequencing and analysis of the human genome.

            The human genome holds an extraordinary trove of information about human development, physiology, medicine and evolution. Here we report the results of an international collaboration to produce and make freely available a draft sequence of the human genome. We also present an initial analysis of the data, describing some of the insights that can be gleaned from the sequence.
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              Genome sequence of the nematode C. elegans: a platform for investigating biology.

              (1999)
              The 97-megabase genomic sequence of the nematode Caenorhabditis elegans reveals over 19,000 genes. More than 40 percent of the predicted protein products find significant matches in other organisms. There is a variety of repeated sequences, both local and dispersed. The distinctive distribution of some repeats and highly conserved genes provides evidence for a regional organization of the chromosomes.
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                Author and article information

                Contributors
                Role: Editor
                Journal
                Genetics
                Genetics
                genetics
                Genetics
                Oxford University Press
                0016-6731
                1943-2631
                May 2022
                22 March 2022
                22 March 2022
                : 221
                : 1
                : iyac014
                Affiliations
                [1 ] Graduate School of Biostudies, Kyoto University , Kyoto 606-8501, Japan
                [2 ] Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine , Denver, CO 80045, USA
                [3 ] RNA Bioscience Initiative, University of Colorado School of Medicine , Aurora, CO 80045, USA
                [4 ] Department of Genetics, University of North Carolina , Chapel Hill, NC 27599, USA
                [5 ] Department of Biology, University of North Carolina , Chapel Hill, NC 27599, USA
                Author notes
                Corresponding author: Graduate School of Biostudies, Kyoto University, Kyoto 606-8501, Japan. Email: carlton.petermark.3v@ 123456kyoto-u.ac.jp ; *Corresponding author: Department of Biochemistry and Molecular Genetics, University of Colorado School of Medicine, Denver, CO 80204, USA. Email: richard.davis@ 123456cuanschutz.edu ; *Corresponding author: Department of Genetics, University of North Carolina, Chapel Hill, NC 27514, USA. Email: shawn@ 123456med.unc.edu
                Author information
                https://orcid.org/0000-0002-5320-6024
                https://orcid.org/0000-0003-2242-3234
                https://orcid.org/0000-0001-6365-2194
                Article
                iyac014
                10.1093/genetics/iyac014
                9071541
                35323874
                ad539c6e-28ee-490b-9d5b-58cd1421720e
                © The Author(s) 2022. Published by Oxford University Press on behalf of Genetics Society of America.

                This is an Open Access article distributed under the terms of the Creative Commons Attribution License ( https://creativecommons.org/licenses/by/4.0/), which permits unrestricted reuse, distribution, and reproduction in any medium, provided the original work is properly cited.

                History
                : 9 September 2022
                : 20 December 2022
                Page count
                Pages: 30
                Funding
                Funded by: Japan Society for the Promotion of Science, KAKENHI;
                Award ID: 18H02373
                Funded by: National Institutes of Health (NIH);
                Award ID: R01 AI114054
                Award ID: NIH R01 GM135470
                Categories
                WormBook
                AcademicSubjects/SCI01180
                AcademicSubjects/SCI01140
                AcademicSubjects/SCI00010
                AcademicSubjects/SCI00960

                Genetics
                holocentric,synteny,centromere,telomere,programmed dna elimination,meiosis,repetitive dna,wormbook
                Genetics
                holocentric, synteny, centromere, telomere, programmed dna elimination, meiosis, repetitive dna, wormbook

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