Get the free A chromosomal-level reference genome of the widely utilized Coccidioides posadasii l...

bioRxiv preprint doi: https://doi.org/10.1101/2021.05.19.444813; this version posted May 19, 2021. The copyright holder for this preprint (which was not certified by peer review) is the author/funder,

How to fill out a chromosomal-level reference genome

How to fill out a chromosomal-level reference genome

1. Obtain a high-quality DNA sample from the organism of interest.
2. Use advanced sequencing technologies, such as long-read sequencing (e.g., PacBio or Oxford Nanopore), to generate raw sequence data.
3. Pre-process the raw sequence data to remove low-quality reads and contaminants.
4. Assemble the genome using specialized software (e.g., CANU, SPAdes) that is designed for long-read data.
5. Scaffold the assembled sequences using genomic mapping techniques or linked-read data to position the contigs on chromosomes.
6. Use bioinformatics tools to annotate the genome, identifying genes, regulatory elements, and other functional features.
7. Validate the assembly and annotations through experimental methods, such as optical mapping or synteny analysis with related species.
8. Submit the reference genome to public databases such as NCBI or Ensembl for availability and further research.

Who needs a chromosomal-level reference genome?

1. Researchers and scientists studying genetics and genomics of specific organisms.
2. Conservation biologists needing detailed genomic information for endangered species.
3. Agricultural scientists developing crop varieties with improved traits through genetic studies.
4. Medical researchers interested in understanding the genetic basis of diseases in various species.
5. Bioinformaticians requiring comprehensive genomic data for comparative analyses and evolutionary studies.

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What is a chromosomal-level reference genome?

A chromosomal-level reference genome is a highly accurate and complete representation of an organism's DNA, structured at the level of chromosomes, allowing for detailed comparisons and analyses of genetic information.

Who is required to file a chromosomal-level reference genome?

Researchers and organizations involved in genomic studies, functional genomics, or biodiversity projects often are required to file a chromosomal-level reference genome, especially if they are submitting data to public repositories or regulatory bodies.

How to fill out a chromosomal-level reference genome?

Filling out a chromosomal-level reference genome involves annotating the genomic sequences with relevant metadata, including organism identification, accession numbers, sequencing methods, and confirmation of quality.

What is the purpose of a chromosomal-level reference genome?

The purpose of a chromosomal-level reference genome is to provide a comprehensive framework for understanding genetic variation, facilitating research in genetics, evolutionary biology, and medicine.

What information must be reported on a chromosomal-level reference genome?

Information that must be reported includes the organism's scientific name, chromosome-level structure, gene annotations, variant positions, sequencing technology used, and details on the assembly and validation processes.