25 lines
1.5 KiB
Org Mode
25 lines
1.5 KiB
Org Mode
#+TITLE: Notes
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* Methods
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** Whole genome sequencing -> PacBio, along with Illumina for error correction in 1% of contig bases
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** Development of a new genome assembler, due to the large genome size (x10 human size) -> MARVEL
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** Verification of the genome assembly using non-exonic ultraconserved elements (UCEs) and generation of a gene catalogue using mRNA to determine if these coded for conserved eukaryotic genes
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** Previously developed molecular toolkit -> germline transgenesis, CRISPR gene mutation, viral transfection... -> Identification of the regeneration cells
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* Findings
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** The median intron size is quite large (12-17 times compared to humans) -> Smaller intron sizes in non-developmental genes, which could facilitate rapid transcription and upregulation
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- Pax family of genes:
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| Presence | Absence |
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| Pax10 | Pax7 |
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| | Pax3 |
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Pax3 and its cis-regulatory elements seem to be absent due to a deletion, although experiments performed using CRISPR mutate the gene show that Pax7 performs the functions of Pax3 along with the usual Pax7 functions in axolotl
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** Limb regeneration
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*** Use of published mRNA and miRNA transcripts and the authors' own transcriptional profiling -> identification of 5 upregulated transcripts
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| Protein | Function |
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| similar to tectorin | Extracellular matrix |
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| Ly6 | uPAR surface receptor |
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*** Mapping non-coding RNAs -> 93 pre-miRNA, 42 novel miRNAs
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* Future work
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Model organism to study the evolutionary basis of its regeneration ability
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