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De novo genome assembly of Auanema melissensis, a trioecious free-living nematode
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Tandonnet, Sophie, Haq, Maairah, Turner, Anisa, Grana, Theresa, Paganopoulou, Panagiota, Adams, Sally, Dhawan, Sandhya, Kanzaki, Natsumi, Nuez, Isabelle, Félix, Marie-Anne and Pires da Silva, André (2022) De novo genome assembly of Auanema melissensis, a trioecious free-living nematode. Journal of Nematology, 54 (1). e2022. doi:10.2478/jofnem-2022-0059 ISSN 0022-300X.
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Official URL: https://doi.org/10.2478/jofnem-2022-0059
Abstract
Stereotactic ablative radiotherapy (SABR) for primary renal cell carcinoma (RCC) is a promising non-invasive ablative treatment option. A prospective interventional clinical trial published by Siva in 2017 showed that treatment was feasible and well tolerated. We present the first single institution UK cohort of patients with primary RCC receiving protocol-based SABR with prospective follow up. We also present a protocol that could be used to facilitate more widespread use of the treatment. Materials and Methods: Nineteen biopsy proven primary RCC patients were treated with either 42 Gy in 3 fractions on alternate days or 26 Gy in single fraction based on predefined eligibility criteria using either Linear Accelerator or CyberKnife platform. Prospective toxicity data using CTCAE V4.0 as well as outcome data such as eGFR and tumour response using CT chest, abdomen and pelvis (CT-TAP) were collected at 6 week, 3,6,12, 18, 24 months post treatment. Results: The 19 patients had a median age of 76 years (Interquartile range (IQR) 64- 82 years); 47.4% males and median tumour size of 4.5cm (IQR 3.8-5.2cm). Single as well as fractionated treatment was well tolerated and there were no significant acute side effects. The mean drop from baseline in eGFR at 6 months was 5.4mls/min and at 12 months was 8.7mls/min. The overall Local control rate at both 6 and 12 months was 94.4 %. Overall survival at 6 and 12 month was 94.7% and 78.3% respectively. After a median follow up of 17 months, three patients experienced a grade 3 toxicity, which resolved with conservative management. Conclusion: SABR for primary RCC is a safe and feasible treatment for medically unfit patients which can be delivered in most UK cancer centres using standard Linear Accelerator as well as CyberKnife platform. Nematodes of the genus Auanema are interesting models for studying sex determination mechanisms because their populations consist of three sexual morphs (males, females, and hermaphrodites) and produce skewed sex ratios. Here we introduce a new undescribed species of this genus, Auanema melissensis n. sp., together with its draft nuclear genome. This species is also trioecious and does not cross with the other described species A. rhodensis or A. freiburgensis. Similar to A. freiburgensis, A. melissensis' maternal environment influences the hermaphrodite versus female sex determination of the offspring. The genome of Auanema melissensis is ~60Mb, containing 11,040 protein-coding genes and 8.07% of repeat sequences. Using the estimated ancestral chromosomal gene content (Nigon Elements), it was possible to identify putative X chromosome scaffolds.
Item Type: | Journal Article | ||||||||||||||||||||||||||||||
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Subjects: | Q Science > QH Natural history | ||||||||||||||||||||||||||||||
Divisions: | Faculty of Science, Engineering and Medicine > Science > Life Sciences (2010- ) | ||||||||||||||||||||||||||||||
Library of Congress Subject Headings (LCSH): | Nematodes -- Genetics, Genomics , Morphology , Gene mapping | ||||||||||||||||||||||||||||||
Journal or Publication Title: | Journal of Nematology | ||||||||||||||||||||||||||||||
Publisher: | Sciendo | ||||||||||||||||||||||||||||||
ISSN: | 0022-300X | ||||||||||||||||||||||||||||||
Official Date: | February 2022 | ||||||||||||||||||||||||||||||
Dates: |
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Volume: | 54 | ||||||||||||||||||||||||||||||
Number: | 1 | ||||||||||||||||||||||||||||||
Article Number: | e2022 | ||||||||||||||||||||||||||||||
DOI: | 10.2478/jofnem-2022-0059 | ||||||||||||||||||||||||||||||
Status: | Peer Reviewed | ||||||||||||||||||||||||||||||
Publication Status: | Published | ||||||||||||||||||||||||||||||
Access rights to Published version: | Open Access (Creative Commons) | ||||||||||||||||||||||||||||||
Date of first compliant deposit: | 14 December 2022 | ||||||||||||||||||||||||||||||
Date of first compliant Open Access: | 10 March 2023 | ||||||||||||||||||||||||||||||
RIOXX Funder/Project Grant: |
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