Reviewer name and names of any other individual's who aided in reviewer |
Walter Wolfsberger |
Do you understand and agree to our policy of having open and named reviews, and having your review included with the published papers. (If no, please inform the editor that you cannot review this manuscript.) |
Yes |
Is the language of sufficient quality? |
Yes |
Please add additional comments on language quality to clarify if needed
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Are all data available and do they match the descriptions in the paper? |
Yes |
Additional Comments |
The data on the FTP server available to me covers everything mentioned in the paper. |
Are the data and metadata consistent with relevant minimum information or reporting standards? See GigaDB checklists for examples <a href="http://gigadb.org/site/guide" target="_blank">http://gigadb.org/site/guide</a> |
Yes |
Additional Comments |
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Is the data acquisition clear, complete and methodologically sound? |
Yes |
Additional Comments |
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Is there sufficient detail in the methods and data-processing steps to allow reproduction? |
Yes |
Additional Comments |
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Is there sufficient data validation and statistical analyses of data quality? |
Yes |
Additional Comments |
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Is the validation suitable for this type of data? |
Yes |
Additional Comments |
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Is there sufficient information for others to reuse this dataset or integrate it with other data? |
Yes |
Additional Comments |
1)
The submission body and the table 1 state the following assembly stats of the genome assembly that seem to indicate some potential issues:
Genome size (Gb) 3.39
No. scaffolds 1,116
No contigs 3,016
Scaffold N50 (Mb) - 6.94
Contig N50 (Mb)- 1.99
The main issue here for me lies in Scaffold N50 in relation to other parameters, when in comparison with the assemblies using similar methodological approach.
This can either be good or bad, as these numbers might indicate an issue during scaffolding, or presence of long top assembly scaffolds (which is great). I believe, that the submission would significantly benefit if this information is mentioned and discussed. |
Any Additional Overall Comments to the Author |
The approach used to generate the assembly seems to utilize 10x PE sequences to scaffold the assembly. There are hybrid assembly approaches available, that leverage short reads to improve the assembly quality, given the slightly limited coverage of PacBio HiFi reads(approx. 12x). |
Recommendation |
Minor Revision |