Add Holothuria poli

[ldemirdj]

Assembly review request

• ToLID: ehHolPoli1
• Species: Holothuria poli
• Project: ERGA-BGE
• Affiliation: Genoscope

[erga-ear-bot]

Hi @ldemirdj, thanks for sending the EAR of Holothuria poli.
I added the corresponding tag to the PR and will contact a supervisor and a reviewer ASAP.

[erga-ear-bot]

Hi @diegomics, do you agree to supervise this assembly?
Please reply to this message only with OK to give acknowledge.

[diegomics]

ok

[erga-ear-bot]

*****
EAR Reviewer Selection Process
Date: 2026-01-27 16:44

All Eligible Candidates:

Github ID     | Full Name             | Institution | Total Reviews | Last Review | Active | Working PRs | Calling Score | Adjusted Score
-----------------------------------------------------------------------------------------------------------------------------------------
msozzoni      | Marcella Sozzoni      | UNIFI       | 0             | NA          | Y      | 2           | 1006          | 1066          
MartinPippel  | Martin Pippel         | SciLifeLab  | 3             | 2026-01-20  | Y      | 1           | 1027          | 1057          
tommathers    | Tom Mathers           | Sanger      | 7             | 2025-10-16  | Y      | 1           | 1026          | 1056          
joannacollins | Jo Collins            | Sanger      | 7             | 2026-01-16  | Y      | 1           | 1026          | 1056          
DomAbsolon    | Dom Absolon           | Sanger      | 8             | 2025-11-04  | Y      | 1           | 1025          | 1055          
gbdias        | Guilherme Dias        | SciLifeLab  | 6             | 2026-01-23  | Y      | 1           | 1024          | 1054          
additive3     | Jo Wood               | Sanger      | 8             | 2025-10-17  | Y      | 1           | 1025          | 1050          
talioto       | Tyler Alioto          | CNAG        | 9             | 2026-01-09  | Y      | 2           | 1031          | 1041          
tbrown91      | Tom Brown             | IZW         | 12            | 2026-01-22  | Y      | 0           | 995           | 1040          
diegomics     | Diego De Panis        | IZW         | 11            | 2025-09-22  | Y      | 0           | 993           | 1038          
gitcruz       | Fernando Cruz         | CNAG        | 14            | 2026-01-14  | Y      | 2           | 1028          | 1038          
jesgomez      | Jessica Gomez Garrido | CNAG        | 14            | 2025-12-19  | Y      | 2           | 1027          | 1037          
SarahPelan    | Sarah Pelan           | Sanger      | 7             | 2025-12-19  | Y      | 2           | 1026          | 1036          

Selected reviewer: Marcella Sozzoni (msozzoni)
The decision was based on:
- different institution ('UNIFI')
- active ('Y')
- working on 2 PR(s) currently
- highest adjusted calling score in this particular selection (1066)
  (Note: Adjusted score already considering -40 points due to 2 ongoing PR(s))

[erga-ear-bot]

Hi @msozzoni, do you agree to review this assembly?
Please reply to this message only with Yes or No by 02-Feb-2026 at 21:44 CET

[msozzoni]

Yes

[erga-ear-bot]

Thanks for agreeing!
I appointed you as the EAR reviewer.
I will track this as one of your Working PRs until you finish this review.
Please check the Wiki if you need to refresh something. (and remember that you must download the EAR PDF to be able to click on the link to the contact map file!)
Contact the PR assignee for any issues.

[msozzoni]

Hi @ldemirdj,

I think this assembly is really good. I have just one question and a couple of suggestions.

Is the pattern of multiple duplications like signals (e.g end of ehHolPoli1_2) is typical of the species Holoturia or does it need to be removed?

As for the suggestions:
Is it possible that ehHolPoli1_3 @ 18.76 Kbp is a duplication?
I think that scaffold_97_H2 and scaffold_101_H2 are unloc for the ehHolPoli1_10

[diegomics]

I will take a closer look tomorrow:
eaHolPoli_2 ~46,664-51,536 flip

[ldemirdj]

Hi @diegomics, do you have anything to add? Thanks!

[diegomics]

Ok, I just did a quick pass.
I think it looks ok. The only thing to double-check is mainly related to unlocs and some unplaced scaffolds (e.g., 61, 66, 76, 85, 90, 97, 100, 101...).
For instance, 22_unloc_1 could go to near the gap @ 18,431, uncovering a duplication or repetitive pattern, but the signal is not super clear to me. This genome contains several apparent small duplication/repetitive signals here and there that look real. This also happened with other unlocks, so I would recommend double-checking that. That's all

[ldemirdj]

Hi, I'm currently generating the new report :)