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List of works by David Roy Smith

: the makings of a giant-sized chloroplast genome

A plastid without a genome: evidence from the nonphotosynthetic green algal genus Polytomella.

scientific article

A walk in the park: Is Pokémon Go foreshadowing the future of biodiversity research and scientific outreach?

scientific article

Academic street smarts: be vigilant of fraudsters: A warning to scientists travelling to conferences about hotel scammers

scientific article published on 09 April 2020

Are we divorced from the species we study?

scientific article published on 22 November 2013

Attention, attention: your most valuable scientific assets are under attack: How digital contraptions and online accounts are contributing to academic attention deficit disorder

scientific article

Auxenochlorella protothecoides and Prototheca wickerhamii plastid genome sequences give insight into the origins of non-photosynthetic algae

scientific article

Bringing bioinformatics to the scientific masses: As the demand for high-level bioinformatics is growing, training students in the field becomes ever more important

scientific article published on 03 May 2018

Broadening the definition of a bioinformatician

scientific article published on 4 August 2015

Buying in to bioinformatics: an introduction to commercial sequence analysis software.

scientific article published in September 2014

Characterization of photosynthetic ferredoxin from the Antarctic alga Chlamydomonas sp. UWO241 reveals novel features of cold adaptation

scientific article published on 08 May 2018

Complete genome sequences from three genetically distinct strains reveal high intraspecies genetic diversity in the microsporidian Encephalitozoon cuniculi

scientific article published on 4 January 2013

Complete mitochondrial DNA sequence of the scallop Placopecten magellanicus: evidence of transposition leading to an uncharacteristically large mitochondrial genome

scientific article published on 6 October 2007

Correlation between nuclear plastid DNA abundance and plastid number supports the limited transfer window hypothesis

scientific article published on 3 February 2011

Do scientists read enough fiction?

scientific article published on 04 January 2021

Do you miss the conference circuit? I surely don't

scientific article published on 11 September 2020

Does Cell Size Impact Chloroplast Genome Size?

scientific article published on 14 December 2017

Does mitochondrial DNA replication in Chlamydomonas require a reverse transcriptase?

scientific article published on 16 September 2020

Don't just dump your data and run: Authors should submit as much experimental information as possible when uploading sequence data

scientific article published on 27 October 2017

Evolution of linear mitochondrial DNA in three known lineages of Polytomella

scientific article published on 24 June 2010

Evolution: In Chloroplast Genomes, Anything Goes.

scientific article published in December 2017

Exploring the Limits and Causes of Plastid Genome Expansion in Volvocine Green Algae

scientific article published on 01 September 2018

Extending the Limited Transfer Window Hypothesis to Inter-organelle DNA Migration ⬇️

scientific article published on July 29, 2011

First complete mitochondrial genome sequence from a box jellyfish reveals a highly fragmented linear architecture and insights into telomere evolution

scientific article published on 24 November 2011

Gene conversion shapes linear mitochondrial genome architecture

scientific article (publication date: 2013)

Goodbye genome paper, hello genome report: the increasing popularity of 'genome announcements' and their impact on science

scientific article

Hemoglobins in the genome of the cryptomonad Guillardia theta

scientific article

Is it time to put a humidifier in the dry domain of writing scientific papers? Given the inaccessibility of many research papers, young scientists should receive more formal training to write clear, understandable, and even enjoyable papers

scientific article published on 03 September 2018

Is sabbatical a dirty word?: Sabbatical is a privilege and a challenge and too often becomes a "staybatical" to finally tackle the demanding projects

scientific article published on 04 June 2020

Last-gen nostalgia: a lighthearted rant and reflection on genome sequencing culture.

scientific article

Low nucleotide diversity for the expanded organelle and nuclear genomes of Volvox carteri supports the mutational-hazard hypothesis

scientific article published on 29 April 2010

Making Your Genbank Entry Count ⬇️

scientific article published on July 4, 2012

Massive and widespread organelle genomic expansion in the green algal genus Dunaliella

scientific article published on 6 February 2015

Massive difference in synonymous substitution rates among mitochondrial, plastid, and nuclear genes of Phaeocystis algae

scientific article published on 8 November 2013

Mitochondrial and plastid genome architecture: Reoccurring themes, but significant differences at the extremes

scientific article

Mitochondrial and plastid genomes of the colonial green alga Gonium pectorale give insights into the origins of organelle DNA architecture within the volvocales

scientific article

Mitochondrial genome of the colorless green alga Polytomella capuana: a linear molecule with an unprecedented GC content

scientific article published on 24 January 2008

Mitochondrion-to-plastid DNA transfer: it happens

scientific article published on 28 January 2014

More than ever, scientists need to engage with the public: the stakes are high and they may be for keeps

scientific article

Mutation rates in plastid genomes: they are lower than you might think

scientific article published on 13 April 2015

Next-generation sequencing data suggest that certain nonphotosynthetic green plants have lost their plastid genomes

scientific article published on 24 June 2014

Not seeing the genomes for the DNA ⬇️

scientific article published on March 9, 2012

Nucleotide diversity in the mitochondrial and nuclear compartments of Chlamydomonas reinhardtii: investigating the origins of genome architecture

scientific article

Nucleotide diversity of the Chlamydomonas reinhardtii plastid genome: addressing the mutational-hazard hypothesis

scientific article

Nucleotide diversity of the colorless green alga Polytomella parva (Chlorophyceae, Chlorophyta): high for the mitochondrial telomeres, surprisingly low everywhere else

scientific article (publication date: 2011)

Nucleotide substitution analyses of the glaucophyte Cyanophora suggest an ancestrally lower mutation rate in plastid vs mitochondrial DNA for the Archaeplastida

scientific article

Organelle genome complexity scales positively with organism size in volvocine green algae

scientific article

Palindromic genes in the linear mitochondrial genome of the nonphotosynthetic green alga Polytomella magna.

scientific article published on January 2013

Pervasive Transcription of Mitochondrial, Plastid, and Nucleomorph Genomes across Diverse Plastid-Bearing Species

scientific article published in October 2017

Pervasive, Genome-Wide Transcription in the Organelle Genomes of Diverse Plastid-Bearing Protists.

scientific article published on 21 September 2017

Phylogeny and Molecular Evolution of the Green Algae

scholarly article by Frederik Leliaert et al published January 2012 in Critical Reviews in Plant Sciences

Plastid genomes hit the big time

scientific article published on 25 March 2018

Presence and absence of light-independent chlorophyll biosynthesis among Chlamydomonas green algae in an ice-covered Antarctic lake

scientific article published on 13 October 2019

Protists and the Wild, Wild West of Gene Expression: New Frontiers, Lawlessness, and Misfits

scientific article published on 17 June 2016

Protocol for HSDFinder: Identifying, annotating, categorizing, and visualizing duplicated genes in eukaryotic genomes

scientific article published on 23 June 2021

RNA-Seq data: a goldmine for organelle research

scientific article

Recovering complete mitochondrial genome sequences from RNA-Seq: A case study of Polytomella non-photosynthetic green algae

scientific article

Relative Mutation Rates in Nucleomorph-Bearing Algae

scientific article published on 01 April 2019

Relative rates of evolution among the three genetic compartments of the red alga Porphyra differ from those of green plants and do not correlate with genome architecture

scientific article published in July 2012

Resolving the phylogenetic relationship between Chlamydomonas sp. UWO 241 and Chlamydomonas raudensis sag 49.72 (Chlorophyceae) with nuclear and plastid DNA sequences

scientific article published on 9 February 2016

Retention, erosion, and loss of the carotenoid biosynthetic pathway in the nonphotosynthetic green algal genus Polytomella

scientific article

Revisiting published genomes with fresh eyes and new data: Revising old sequencing data can yield unexpected insights and identify errors

scientific article published on 03 November 2019

Similar relative mutation rates in the three genetic compartments of Mesostigma and Chlamydomonas.

scientific article

Spathaspora passalidarum selected for resistance to AFEX hydrolysate shows decreased cell yield

scientific article published on 01 September 2018

The (in)complete organelle genome: exploring the use and nonuse of available technologies for characterizing mitochondrial and plastid chromosomes

scientific article published on 2 August 2016

The Dunaliella salina organelle genomes: large sequences, inflated with intronic and intergenic DNA

scientific article

The Frankenthesis: This stitched-together monster is alive and coming to a campus near you.

scientific article

The GC-rich mitochondrial and plastid genomes of the green alga Coccomyxa give insight into the evolution of organelle DNA nucleotide landscape

scientific article

The Gonium pectorale genome demonstrates co-option of cell cycle regulation during the evolution of multicellularity.

scientific article

The Plastid Genome of Polytoma uvella Is the Largest Known among Colorless Algae and Plants and Reflects Contrasting Evolutionary Paths to Nonphotosynthetic Lifestyles.

scientific article published on 8 December 2016

The battle for user-friendly bioinformatics

scientific article published on 20 September 2013

The enigmatic loss of light-independent chlorophyll biosynthesis from an Antarctic green alga in a light-limited environment

scientific article published on 27 December 2018

The mitochondrial and plastid genomes of Volvox carteri: bloated molecules rich in repetitive DNA

scientific article

The mutational hazard hypothesis of organelle genome evolution: 10 years on.

scientific article

The outsourcing and commercialization of science: Is the lab CEO the future of academic research?

scientific article

The past, present and future of mitochondrial genomics: have we sequenced enough mtDNAs?

scientific article

The plastid genomes of nonphotosynthetic algae are not so small after all.

scientific article published on February 2017

Twenty‐Fold Difference in Evolutionary Rates between the Mitochondrial and Plastid Genomes of Species with Secondary Red Plastids ⬇️

scientific article published on January 11, 2012

Unparalleled GC content in the plastid DNA of Selaginella

scientific article published on 23 September 2009

Unparalleled Variation in RNA Editing among Selaginella Plastomes

scientific article published on 03 September 2019

Unraveling chloroplast transcriptomes with ChloroSeq, an organelle RNA-Seq bioinformatics pipeline

scientific article published on 26 September 2016

Updating our view of organelle genome nucleotide landscape.

scientific article

Volvox, rolling out from under the shadow of Chlamydomonas with support from the AGA.

scientific article

When the lights go out: the evolutionary fate of free-living colorless green algae

scientific article

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