Genome evolution of a nonparasitic secondary heterotroph, the diatom Nitzschia putrida
Ryoma Kamikawa
(1)
,
Takako Mochizuki
(2)
,
Mika Sakamoto
(2)
,
Yasuhiro Tanizawa
(2)
,
Takuro Nakayama
(3)
,
Ryo Onuma
(2)
,
Ugo Cenci
(4)
,
Daniel Moog
(5)
,
Samuel Speak
(6)
,
Krisztina Sarkozi
(6)
,
Andrew Toseland
(6)
,
Cock van Oosterhout
(6)
,
Kaori Oyama
(7)
,
Misako Kato
(7)
,
Keitaro Kume
(8)
,
Motoki Kayama
(1)
,
Tomonori Azuma
(1)
,
Ken-Ichiro Ishii
(1)
,
Hideaki Miyashita
(1)
,
Bernard Henrissat
(9)
,
Vincent Lombard
(9)
,
Joe Win
(6)
,
Sophien Kamoun
(6)
,
Yuichiro Kashiyama
(10)
,
Shigeki Mayama
,
Shin-Ya Miyagishima
(2)
,
Goro Tanifuji
,
Thomas Mock
(6)
,
Yasukazu Nakamura
(2)
1
Kyoto University
2 NIG - National Institute of Genetics [Shizuoka, Japan]
3 Tohoku University [Sendai]
4 UGSF - Unité de Glycobiologie Structurale et Fonctionnelle - UMR 8576
5 Philipps Universität Marburg = Philipps University of Marburg
6 UEA - University of East Anglia [Norwich]
7 Ochanomizu University
8 Université de Tsukuba = University of Tsukuba
9 AFMB - Architecture et fonction des macromolécules biologiques
10 Fukui University of Technology
2 NIG - National Institute of Genetics [Shizuoka, Japan]
3 Tohoku University [Sendai]
4 UGSF - Unité de Glycobiologie Structurale et Fonctionnelle - UMR 8576
5 Philipps Universität Marburg = Philipps University of Marburg
6 UEA - University of East Anglia [Norwich]
7 Ochanomizu University
8 Université de Tsukuba = University of Tsukuba
9 AFMB - Architecture et fonction des macromolécules biologiques
10 Fukui University of Technology
Cock van Oosterhout
- Fonction : Auteur
- PersonId : 781816
- ORCID : 0000-0002-5653-738X
Bernard Henrissat
- Fonction : Auteur
- PersonId : 756449
- ORCID : 0000-0002-3434-8588
- IdRef : 122390059
Vincent Lombard
- Fonction : Auteur
- PersonId : 751357
- IdHAL : vincent-lombard
- ORCID : 0000-0002-9684-7067
Joe Win
- Fonction : Auteur
- PersonId : 776794
- ORCID : 0000-0002-9851-2404
Sophien Kamoun
- Fonction : Auteur
- PersonId : 770142
- ORCID : 0000-0002-0290-0315
- IdRef : 152505393
Shigeki Mayama
- Fonction : Auteur
Goro Tanifuji
- Fonction : Auteur
Résumé
Secondary loss of photosynthesis is observed across almost all plastid-bearing branches of the eukaryotic tree of life. However, genome-based insights into the transition from a phototroph into a secondary heterotroph have so far only been revealed for parasitic species. Free-living organisms can yield unique insights into the evolutionary consequence of the loss of photosynthesis, as the parasitic lifestyle requires specific adaptations to host environments. Here, we report on the diploid genome of the free-living diatom
Nitzschia putrida
(35 Mbp), a nonphotosynthetic osmotroph whose photosynthetic relatives contribute ca. 40% of net oceanic primary production. Comparative analyses with photosynthetic diatoms and heterotrophic algae with parasitic lifestyle revealed that a combination of gene loss, the accumulation of genes involved in organic carbon degradation, a unique secretome, and the rapid divergence of conserved gene families involved in cell wall and extracellular metabolism appear to have facilitated the lifestyle of a free-living secondary heterotroph.
