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Phylogenomic fingerprinting of tempo and functions of horizontal gene transfer within ochrophytes.

Author(s): Dorrell RG, Villain A, Perez-Lamarque B, Audren de Kerdrel G, McCallum G, Watson AK, Ait-Mohamed O, Alberti A, Corre E, Frischkorn KR, Piere...

Horizontal gene transfer (HGT) is an important source of novelty in eukaryotic genomes. This is particularly true for the ochrophytes, a diverse and important group of algae. Previous studies have ...

Article GUID: 33419955
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Proc Natl Acad Sci U S A. 2020 May 11;: Authors: Martin JT, Pederson GT, Woodhouse CA, Cook ER, McCabe GJ, Anchukaitis KJ, Wise EK, Erger PJ, Dolan L, McGuire M, Gangopadhyay S, Chase KJ, Littell ...

Article GUID: 32393620
Late-spring frost risk between 1959 and 2017 decreased in North America but increased in Europe and Asia.

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Late-spring frosts (LSFs) affect the performance of plants and animals across the world's temperate and boreal zones, but despite their ecological and economic impact on agriculture and forestr...

Article GUID: 32393624
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Author(s): Ziter CD, Pedersen EJ, Kucharik CJ, Turner MG

Proc Natl Acad Sci U S A. 2019 Dec 17;: Authors: Ziter CD, Pedersen EJ, Kucharik CJ, Turner MG PMID: 31848251 [PubMed - as supplied by publisher]

Article GUID: 31848251
Behavior is the ultimate arbiter: An alternative explanation for the inhibitory effect of fluoxetine on the ovulatory homolog model of orgasm in rabbits.

Author(s): Quintana GR, Mac Cionnaith CE, Pfaus JG

Proc Natl Acad Sci U S A. 2019 Dec 03;: Authors: Quintana GR, Mac Cionnaith CE, Pfaus JG PMID: 31796602 [PubMed - as supplied by publisher]

Article GUID: 31796602
Epigenetic control of pheromone MAPK signaling determines sexual fecundity in Candida albicans.

Author(s): Scaduto CM, Kabrawala S, Thomson GJ, Scheving W, Ly A, Anderson MZ, Whiteway M, Bennett RJ

Proc Natl Acad Sci U S A. 2017 12 26;114(52):13780-13785 Authors: Scaduto CM, Kabrawala S, Thomson GJ, Scheving W, Ly A, Anderson MZ, Whiteway M, Bennett RJ

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Biogenic membranes of the chloroplast in Chlamydomonas reinhardtii.

Author(s): Schottkowski M, Peters M, Zhan Y, Rifai O, Zhang Y, Zerges W

Proc Natl Acad Sci U S A. 2012 Nov 20;109(47):19286-91 Authors: Schottkowski M, Peters M, Zhan Y, Rifai O, Zhang Y, Zerges W

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Neural network retuning and neural predictors of learning success associated with cello training

Author(s): Wollman I; Penhune V; Segado M; Carpentier T; Zatorre RJ;

The auditory and motor neural systems are closely intertwined, enabling people to carry out tasks such as playing a musical instrument whose mapping between action and sound is extremely sophisticated. While the dorsal auditory stream has been shown to medi...

Article GUID: 29891670
Linking plasma formation in grapes to microwave resonances of aqueous dimers.

Author(s): Khattak HK, Bianucci P, Slepkov AD

Proc Natl Acad Sci U S A. 2019 Feb 19;: Authors: Khattak HK, Bianucci P, Slepkov AD

Article GUID: 30782800
mTOR signaling in VIP neurons regulates circadian clock synchrony and olfaction

Author(s): Liu D; Stowie A; de Zavalia N; Leise T; Pathak SS; Drewes LR; Davidson AJ; Amir S; Sonenberg N; Cao R;...

Mammalian/mechanistic target of rapamycin (mTOR) signaling controls cell growth, proliferation, and metabolism in dividing cells. Less is known regarding its function in postmitotic neurons in the ...

Article GUID: 29555746
Superoxide dismutase activity confers (p)ppGpp-mediated antibiotic tolerance to stationary-phase Pseudomonas aeruginosa.

Author(s): Martins D, McKay G, Sampathkumar G, Khakimova M, English AM, Nguyen D

Proc Natl Acad Sci U S A. 2018 09 25;115(39):9797-9802 Authors: Martins D, McKay G, Sampathkumar G, Khakimova M, English AM, Nguyen D

Article GUID: 30201715
Title:Phylogenomic fingerprinting of tempo and functions of horizontal gene transfer within ochrophytes.
Authors:Dorrell RG,  Villain A,  Perez-Lamarque B,  Audren de Kerdrel G,  McCallum G,  Watson AK,  Ait-Mohamed O,  Alberti A,  Corre E,  Frischkorn KR,  Pierella Karlusich JJ,  Pelletier E,  Morlon H,  Bowler C,  Blanc G
Link:https://www.ncbi.nlm.nih.gov/pubmed/33419955
DOI:10.1073/pnas.2009974118
Category:Proc Natl Acad Sci U S A
PMID:33419955
Dept Affiliation: BIOLOGY
1 Institut de Biologie de l'École Normale Supérieure, Ecole Normale Supérieure, CNRS, INSERM, Université Paris Sciences et Lettres, 75005 Paris, France; dorrell@bio.ens.psl.eu guillaume.blanc@mio.osupytheas.fr.
2 Aix Marseille University, Universite de Toulon, CNRS, Institut de Recherche pour le Développement (IRD), Mediterranean Institute of Oceanography (MIO) UM 110, 13288 Marseille, France.
3 Institut de Biologie de l'École Normale Supérieure, Ecole Normale Supérieure, CNRS, INSERM, Université Paris Sciences et Lettres, 75005 Paris, France.
4 Institut de Systématique, Evolution, Biodiversité (ISYEB), Muséum National d'Histoire Naturelle, CNRS, Sorbonne Université, École Pratique des Hautes Études (EPHE), Université des Antilles (UA), 75005 Paris, France.
5 Department of Biology, Concordia University, H3G 1M8 QC, Montreal, H3G 1M8 QC, Canada.
6 Metabolic Genomics, Genoscope, Institut de Biologie François Jacob, Commissariat à l'Energie Atomique, CNRS, Université Evry, Université Paris-Saclay, 91000 Evry, France.
7 FR 2424 CNRS, Analysis and Bioinformatics for Marine Science, Station Biologique de Roscoff, Université Pierre et Marie Curie Paris 06, 75005 Paris, France.
8 Research Federation for the Study of Global Ocean Systems Ecology and Evolution, FR2022/Tara Oceans Global Ocean Systems Ecology and Evolution, 75016 Paris, France.
9 Aix Marseille University, Universite de Toulon, CNRS, Institut de Recherche pour le Développement (IRD), Mediterranean Institute of Oceanography (MIO) UM 110, 13288 Marseille, France; dorrell@bio.ens.psl.eu guillaume.blanc@mio.osupytheas.fr.

Description:

Phylogenomic fingerprinting of tempo and functions of horizontal gene transfer within ochrophytes.

Proc Natl Acad Sci U S A. 2021 Jan 26; 118(4):

Authors: Dorrell RG, Villain A, Perez-Lamarque B, Audren de Kerdrel G, McCallum G, Watson AK, Ait-Mohamed O, Alberti A, Corre E, Frischkorn KR, Pierella Karlusich JJ, Pelletier E, Morlon H, Bowler C, Blanc G

Abstract

Horizontal gene transfer (HGT) is an important source of novelty in eukaryotic genomes. This is particularly true for the ochrophytes, a diverse and important group of algae. Previous studies have shown that ochrophytes possess a mosaic of genes derived from bacteria and eukaryotic algae, acquired through chloroplast endosymbiosis and from HGTs, although understanding of the time points and mechanisms underpinning these transfers has been restricted by the depth of taxonomic sampling possible. We harness an expanded set of ochrophyte sequence libraries, alongside automated and manual phylogenetic annotation, in silico modeling, and experimental techniques, to assess the frequency and functions of HGT across this lineage. Through manual annotation of thousands of single-gene trees, we identify continuous bacterial HGT as the predominant source of recently arrived genes in the model diatom Phaeodactylum tricornutum Using a large-scale automated dataset, a multigene ochrophyte reference tree, and mathematical reconciliation of gene trees, we note a probable elevation of bacterial HGTs at foundational points in diatom evolution, following their divergence from other ochrophytes. Finally, we demonstrate that throughout ochrophyte evolutionary history, bacterial HGTs have been enriched in genes encoding secreted proteins. Our study provides insights into the sources and frequency of HGTs, and functional contributions that HGT has made to algal evolution.

PMID: 33419955 [PubMed - as supplied by publisher]