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List of works by Debashish Bhattacharya

A genome-wide investigation of the effect of farming and human-mediated introduction on the ubiquitous seaweed Undaria pinnatifida

scientific article published on 25 January 2021

A molecular timeline for the origin of photosynthetic eukaryotes

scientific article (publication date: May 2004)

A phylogenomic approach for studying plastid endosymbiosis.

scientific article published in January 2008

A single origin of the peridinin- and fucoxanthin-containing plastids in dinoflagellates through tertiary endosymbiosis

scientific article

A single origin of the photosynthetic organelle in different Paulinella lineages

scientific article (publication date: 13 May 2009)

A three-gene dinoflagellate phylogeny suggests monophyly of prorocentrales and a basal position for amphidinium and heterocapsa

scientific article published on 26 September 2007

ALGAE CONTAINING CHLOROPHYLLS a + c ARE PARAPHYLETIC: MOLECULAR EVOLUTIONARY ANALYSIS OF THE CHROMOPHYTA.

scientific article published on December 1992

ANALYSIS OF ALEXANDRIUM TAMARENSE (DINOPHYCEAE) GENES REVEALS THE COMPLEX EVOLUTIONARY HISTORY OF A MICROBIAL EUKARYOTE().

scientific article

Active host response to algal symbionts in the sea slug Elysia chlorotica.

scientific article published on 5 April 2018

Adaptation through horizontal gene transfer in the cryptoendolithic red alga Galdieria phlegrea.

scientific article published in October 2013

Adaptation to Extreme Antarctic Environments Revealed by the Genome of a Sea Ice Green Alga

scientific article published on 29 June 2020

Adenosine deamination in human transcripts generates novel microRNA binding sites

scientific article published on 23 September 2009

Advances in Fungal Phylogenomics and Their Impact on Fungal Systematics

scientific article published on 20 October 2017

Algal Phylogeny and the Origin of Land Plants

scientific article published in January 1998

Algal endosymbionts as vectors of horizontal gene transfer in photosynthetic eukaryotes

scientific article published on 19 September 2013

Amoeba genome reveals dominant host contribution to plastid endosymbiosis

scientific article published on 13 August 2020

Analysis of Gambierdiscus transcriptome data supports ancient origins of mixotrophic pathways in dinoflagellates

scientific article

Analysis of Porphyra membrane transporters demonstrates gene transfer among photosynthetic eukaryotes and numerous sodium-coupled transport systems

scientific article (publication date: April 2012)

Analysis of an improved Cyanophora paradoxa genome assembly

scientific article published on 01 August 2019

Analysis of horizontal genetic transfer in red algae in the post-genomics age.

scientific article

Analysis of the draft genome of the red seaweed Gracilariopsis chorda provides insights into genome size evolution in Rhodophyta.

scientific article published on 23 April 2018

Ancestral germen/soma distinction in microbes: Expanding the disposable soma theory of aging to all unicellular lineages

scientific article published on 05 April 2020

Ancient gene paralogy may mislead inference of plastid phylogeny.

scientific article

Ancient recruitment by chromists of green algal genes encoding enzymes for carotenoid biosynthesis

scientific article

Applications of next-generation sequencing to unravelling the evolutionary history of algae

scientific article published on February 2014

As an evolutionary biologist. Debashish Bhattacharya

scientific article published in September 2011

Assessing the bacterial contribution to the plastid proteome

scientific article published on 16 October 2013

Biochemical diversity of glycosphingolipid biosynthesis as a driver of Coccolithovirus competitive ecology

scientific article published on 20 May 2019

Biotic Host-Pathogen Interactions As Major Drivers of Plastid Endosymbiosis

scientific article published on 11 January 2017

Biotic interactions as drivers of algal origin and evolution.

scientific article

Broadly sampled multigene trees of eukaryotes

scientific article

Building consensus around the assessment and interpretation of Symbiodiniaceae diversity

scientific article published on 2 May 2023

Chimeric plastid proteome in the Florida "red tide" dinoflagellate Karenia brevis

scientific article published on 28 July 2006

Chlamydiae has contributed at least 55 genes to Plantae with predominantly plastid functions

scientific article

Chloroplast phylogenomic analyses reveal the deepest-branching lineage of the Chlorophyta, Palmophyllophyceae class. nov

scientific article

Cladogramly Dull versus Cladogramly Interesting

scientific article (publication date: November 1998)

Cloning and characterization of four novel coral acid-rich proteins that precipitate carbonates in vitro

scientific article published on 6 June 2013

Commentary: Plastid establishment did not require a chlamydial partner

scientific article published on 13 April 2016

Comparative analysis of the complete plastid genome sequence of the red alga Gracilaria tenuistipitata var. liui provides insights into the evolution of rhodoplasts and their relationship to other plastids

scientific article

Comparative genomics explains the evolutionary success of reef-forming corals

scientific article

Comparison of 15 dinoflagellate genomes reveals extensive sequence and structural divergence in family Symbiodiniaceae and genus Symbiodinium

scientific article published on 13 April 2021

Complex phylogeographic patterns in the freshwater alga Synura provide new insights into ubiquity vs. endemism in microbial eukaryotes

scientific article published on 9 September 2010

Contemporary minimally invasive approaches to the management of acute cholecystitis: a review and appraisal

scientific article

Convergent evolution of polysaccharide debranching defines a common mechanism for starch accumulation in cyanobacteria and plants.

scientific article published on 25 October 2013

Core genes in diverse dinoflagellate lineages include a wealth of conserved dark genes with unknown functions

scientific article published in Scientific Reports

Correction to: Potential causes and consequences of rapid mitochondrial genome evolution in thermoacidophilic Galdieria (Rhodophyta)

scientific article published on 07 October 2020

Correlation between organelle genetic variation and RNA editing in dinoflagellates associated with the coral Acropora digitifera

scientific article published on 27 February 2020

Cyanobacterial contribution to algal nuclear genomes is primarily limited to plastid functions

scientific article published in December 2006

Cyanobacterial ribosomal RNA genes with multiple, endonuclease-encoding group I introns

scientific article

Cyanophora paradoxa Genome Elucidates Origin of Photosynthesis in Algae and Plants

scientific article

Deciphering primordial cyanobacterial genome functions from protein network analysis

scientific article published on 12 February 2015

Defining the major lineages of red algae (Rhodophyta)

article

Development of a dinoflagellate-oriented PCR primer set leads to detection of picoplanktonic dinoflagellates from Long Island Sound

scientific article

Differential gene retention in plastids of common recent origin.

scientific article

Dinoflagellates: a remarkable evolutionary experiment

scientific article

Discovery of SCORs: Anciently derived, highly conserved gene-associated repeats in stony corals

scientific article published on 17 June 2017

Divergence time estimates and the evolution of major lineages in the florideophyte red algae

scientific article

Divergent evolutionary histories of DNA markers in a Hawaiian population of the coral Montipora capitata

scientific article published on 18 May 2017

Divergent histories of rDNA group I introns in the lichen family Physciaceae.

scientific article

Dozens of Toxin-Related Genes Are Expressed in a Nontoxic Strain of the Dinoflagellate Heterocapsa circularisquama ⬇️

scientific article published on January 16, 2012

Draft assembly of the Symbiodinium minutum nuclear genome reveals dinoflagellate gene structure.

scientific article

ENDOSYMBIOTIC AND HORIZONTAL GENE TRANSFER IN CHROMALVEOLATES(1).

scientific article published on February 2008

EST analysis of Ostreococcus lucimarinus, the most compact eukaryotic genome, shows an excess of introns in highly expressed genes

scientific article

EVOLUTION. Pathogen to powerhouse

scientific article published in February 2016

Electrical impedance as an indicator of microalgal cell health

scientific article published on 27 January 2020

Emergence of Xin demarcates a key innovation in heart evolution

scientific article

Endosymbiont or host: who drove mitochondrial and plastid evolution? ⬇️

scientific article published on February 19, 2011

Endosymbiotic and horizontal gene transfer in microbial eukaryotes: Impacts on cell evolution and the tree of life

scientific article published on March 2012

Establishment of endolithic populations of extremophilic Cyanidiales (Rhodophyta).

scientific article published on 5 October 2006

Eukaryotic algal phytochromes span the visible spectrum

scientific article published on 24 February 2014

Evaluating support for the current classification of eukaryotic diversity ⬇️

scientific article published in December 2006

Evidence That Inconsistent Gene Prediction Can Mislead Analysis of Dinoflagellate Genomes

scientific article published on 01 February 2020

Evidence for widespread exonic small RNAs in the glaucophyte alga Cyanophora paradoxa

scientific article published on 03 July 2013

Evidence of a chimeric genome in the cyanobacterial ancestor of plastids

scientific article (publication date: 23 April 2008)

Evidence of ancient genome reduction in red algae (Rhodophyta).

scientific article

Evolution of Pleopsidium (lichenized Ascomycota) S943 group I introns and the phylogeography of an intron-encoded putative homing endonuclease

scientific article published on 8 February 2007

Evolution of a novel function: nutritive milk in the viviparous cockroach, Diploptera punctata

scientific article

Evolution of salt tolerance in a laboratory reared population of Chlamydomonas reinhardtii

scientific article published on 23 January 2014

Evolution of saxitoxin synthesis in cyanobacteria and dinoflagellates

scientific article published on 23 May 2012

Evolutionary Dynamics of Cryptophyte Plastid Genomes

scientific article published on July 2017

Evolutionary dynamics of the chromatophore genome in three photosynthetic Paulinella species

Evolutionary history of redox metal-binding domains across the tree of life

scientific article

Expansion of phycobilisome linker gene families in mesophilic red algae

scientific article published on 23 October 2019

Exploring biotic interactions within protist cell populations using network methods

scientific article

Expressed sequence tags: normalization and subtraction of cDNA libraries expressed sequence tags\ normalization and subtraction of cDNA libraries

scientific article

Extensive horizontal gene transfers between plant pathogenic fungi.

scientific article

Foreign gene recruitment to the fatty acid biosynthesis pathway in diatoms.

scientific article published on September 2013

Formation of chimeric genes with essential functions at the origin of eukaryotes.

scientific article published on 13 March 2018

GENOMIC INSIGHTS INTO EVOLUTIONARY RELATIONSHIPS AMONG HETEROKONT LINEAGES EMPHASIZING THE PHAEOPHYCEAE(1).

scientific article

Gene transfers from diverse bacteria compensate for reductive genome evolution in the chromatophore of Paulinella chromatophora

scientific article published on 10 October 2016

Genome Analysis of Elysia chlorotica Egg DNA Provides No Evidence for Horizontal Gene Transfer into the Germ Line of This Kleptoplastic Mollusc ⬇️

scientific article published on May 2, 2013

Genome Evolution of Coral Reef Symbionts as Intracellular Residents

scientific article published on 10 May 2019

Genome analysis of the rice coral Montipora capitata

Genome of the halotolerant green alga Picochlorum sp. reveals strategies for thriving under fluctuating environmental conditions

scientific article

Genome of the red alga Porphyridium purpureum

scientific article

Genome wide analysis of the transition to pathogenic lifestyles in Magnaporthales fungi

scientific article published on 12 April 2018

Genomes of the dinoflagellate Polarella glacialis encode tandemly repeated single-exon genes with adaptive functions

scientific article published on 24 May 2020

Genomic Analysis of Picochlorum Species Reveals How Microalgae May Adapt to Variable Environments

scientific article published on 01 November 2018

Genomic footprints of a cryptic plastid endosymbiosis in diatoms

scientific article

Glaucophyta

Good to the bone: microbial community thrives within bone cavities of a bison carcass at Yellowstone National Park

scientific article published on November 2, 2010

Heterogeneity of intron presence or absence in rDNA genes of the lichen species Physcia aipolia and P. stellaris

scientific article published on 3 May 2005

Hidden biodiversity of the extremophilic Cyanidiales red algae

scientific article published in July 2004

High phenolics Rutgers Scarlet Lettuce improves glucose metabolism in high fat diet-induced obese mice

scientific article

Highly Conserved Mitochondrial Genomes among Multicellular Red Algae of the Florideophyceae

scientific article

Horizontal gene transfer in chromalveolates

scientific article

Horizontal gene transfer of the algal nuclear gene psbO to the photosynthetic sea slug Elysia chlorotica

scientific article

Host origin of plastid solute transporters in the first photosynthetic eukaryotes

scientific article

How do endosymbionts become organelles? Understanding early events in plastid evolution

article

Hypothesis: Gene-rich plastid genomes in red algae may be an outcome of nuclear genome reduction

scientific article published on 17 January 2017

Identification of a Marine Cyanophage in a Protist Single-cell Metagenome Assembly

scientific article

Impact of light intensity and quality on chromatophore and nuclear gene expression in Paulinella chromatophora, an amoeba with nascent photosynthetic organelles

scientific article

Improved Cladocopium goreaui Genome Assembly Reveals Features of a Facultative Coral Symbiont and the Complex Evolutionary History of Dinoflagellate Genes

scientific article published in 2022

Infection and the first eukaryotes--Response

scientific article published in May 2016

Insights into a dinoflagellate genome through expressed sequence tag analysis

scientific article

Insights into the Evolution of Multicellularity from the Sea Lettuce Genome

scientific article published on 13 September 2018

Insights into the red algae and eukaryotic evolution from the genome of Porphyra umbilicalis (Bangiophyceae, Rhodophyta)

scientific article

Interrelationships of chromalveolates within a broadly sampled tree of photosynthetic protists

scientific article (publication date: October 2009)

Introducing Trait Networks to Elucidate the Fluidity of Organismal Evolution Using Palaeontological Data

scientific article published on 01 September 2019

Kingdom-wide comparison reveals the evolution of diurnal gene expression in Archaeplastida

scientific article published in Nature Communications

Long-term evolution of the S788 fungal nuclear small subunit rRNA group I introns

scientific article

Metabolic connectivity as a driver of host and endosymbiont integration

scientific article

Metabolic effectors secreted by bacterial pathogens: essential facilitators of plastid endosymbiosis?

scientific article published on 31 January 2013

Migration of the plastid genome to the nucleus in a peridinin dinoflagellate.

scientific article published in February 2004

Minimal plastid genome evolution in the Paulinella endosymbiont

scientific article published on 01 September 2006

Mitochondrial and plastid evolution in eukaryotes: an outsiders' perspective

scientific article published on July 2009

Mitochondrial and plastid genomes from coralline red algae provide insights into the incongruent evolutionary histories of organelles

scientific article published on 01 November 2018

Mitochondrial cob and cox1 genes and editing of the corresponding mRNAs in Dinophysis acuminata from Narragansett Bay, with special reference to the phylogenetic position of the genus Dinophysis

scientific article published on 28 December 2007

Molecular characterization of the Calvin cycle enzyme phosphoribulokinase in the stramenopile alga Vaucheria litorea and the plastid hosting mollusc Elysia chlorotica

scientific article published on 30 October 2009

Multiple genes of apparent algal origin suggest ciliates may once have been photosynthetic.

scientific article published on July 2008

Non-random sharing of Plantae genes

scientific article

Origin of saxitoxin biosynthetic genes in cyanobacteria

scientific article

PHYLOGENETIC EVIDENCE FOR THE CRYPTOPHYTE ORIGIN OF THE PLASTID OF DINOPHYSIS (DINOPHYSIALES, DINOPHYCEAE)1

article

PULSED-FIELD GEL ELECTROPHORESIS ANALYSIS OF GENOME SIZE AND STRUCTURE IN<i>PAVLOVA GYRANS</i>AND<i>DIACRONEMA</i>SP. (HAPTOPHYTA)<sup>1</sup>

scientific article published on 11 July 2007

Parallel evolution of highly conserved plastid genome architecture in red seaweeds and seed plants

scientific article

Paulinella, a model for understanding plastid primary endosymbiosis

scientific article published on 14 April 2020

Photosynthetic eukaryotes unite: endosymbiosis connects the dots

scientific article (publication date: 2004)

PhySortR: a fast, flexible tool for sorting phylogenetic trees in R.

scientific article

PhyloSort: a user-friendly phylogenetic sorting tool and its application to estimating the cyanobacterial contribution to the nuclear genome of Chlamydomonas

scientific article

Phylogenetic analyses suggest reverse splicing spread of group I introns in fungal ribosomal DNA.

scientific article

Phylogenetic analysis of LSU and SSU rDNA group I introns of lichen photobionts associated with the genera Xanthoria and Xanthomendoza (Teloschistaceae, lichenized Ascomycetes).

scientific article published on December 2013

Phylogenetic origins of Lophocereus (Cactaceae) and the senita cactus–senita moth pollination mutualism ⬇️

scientific article published on July 1, 2002

Phylogenomic analysis identifies red algal genes of endosymbiotic origin in the chromalveolates

scientific article published on 15 December 2005

Phylogenomic analysis supports the monophyly of cryptophytes and haptophytes and the association of rhizaria with chromalveolates

scientific article

Phylogenomic analysis uncovers the evolutionary history of nutrition and infection mode in rice blast fungus and other Magnaporthales

scientific article

Phylogeny and self-splicing ability of the plastid tRNA-Leu group I Intron.

scientific article

Phylogeny of Calvin cycle enzymes supports Plantae monophyly

scientific article published on 04 March 2007

Phylogeny of nuclear-encoded plastid-targeted proteins supports an early divergence of glaucophytes within Plantae

scientific article published on 6 September 2007

Phytoplankton pangenome reveals extensive prokaryotic horizontal gene transfer of diverse functions

scientific article published on 29 April 2020

Plastid origin and evolution: new models provide insights into old problems

scientific article (publication date: April 2011)

Ploidy Variation and Its Implications for Reproduction and Population Dynamics in Two Sympatric Hawaiian Coral Species

scientific article published in 2023

Porphyra (Bangiophyceae) Transcriptomes Provide Insights Into Red Algal Development And Metabolism

scientific article

Primary endosymbiosis and the evolution of light and oxygen sensing in photosynthetic eukaryotes

scientific article

Propofol compared with general anesthesia for pediatric GI endoscopy: Is propofol better? ⬇️

scientific article published on January 1, 2002

Propofol decreases waste anesthetic gas exposure during pediatric bronchoscopy

scientific article published on February 2004

Protein networks identify novel symbiogenetic genes resulting from plastid endosymbiosis

scientific article published on 14 March 2016

Proteomic analysis of skeletal organic matrix from the stony coral Stylophora pistillata ⬇️

scientific article published on February 19, 2013

Proteomic analysis of the Cyanophora paradoxa muroplast provides clues on early events in plastid endosymbiosis

scientific article

Pyropia yezoensis genome reveals diverse mechanisms of carbon acquisition in the intertidal environment

scientific article published on 12 August 2020

Recent mobility of plastid encoded group II introns and twintrons in five strains of the unicellular red alga Porphyridium

scientific article published on 18 June 2015

Reconstructing the complex evolutionary history of mobile plasmids in red algal genomes

scientific article

Red Algal Phylogenomics Provides a Robust Framework for Inferring Evolution of Key Metabolic Pathways

scientific article

Red and green algal monophyly and extensive gene sharing found in a rich repertoire of red algal genes

scientific article

Red and green algal origin of diatom membrane transporters: insights into environmental adaptation and cell evolution

scientific article

Remodeling of intermediate metabolism in the diatom Phaeodactylum tricornutum under nitrogen stress

scientific article

Reply to Ramos-Silva et al.: Regarding coral skeletal proteome ⬇️

scientific article published on June 11, 2013

Reshaping Darwin's Tree: Impact of the Symbiome

scientific article

Residency evaluation and adherence design study: Young ophthalmologists' perception of their residency programs - Clinical and surgical skills

scientific article

Revaluating the evolution of the Toc and Tic protein translocons

scientific article published on 29 November 2008

Rhodophyta

Robust Dinoflagellata phylogeny inferred from public transcriptome databases

scientific article

Sea slug kleptoplasty and plastid maintenance in a metazoan

scientific article published on 23 February 2011

Sequence similarity network reveals the imprints of major diversification events in the evolution of microbial life

article

Sex in Symbiodiniaceae dinoflagellates: genomic evidence for independent loss of the canonical synaptonemal complex

scientific article published on 17 June 2020

Single cell genome analysis of an uncultured heterotrophic stramenopile.

scientific article

Single cell genome analysis supports a link between phagotrophy and primary plastid endosymbiosis.

scientific article published on 10 April 2012

Single, ancient origin of a plastid metabolite translocator family in Plantae from an endomembrane-derived ancestor

scientific article published in March 2006

Single-cell genomics reveals organismal interactions in uncultivated marine protists.

scientific article

Temporal and spatial expression patterns of biomineralization proteins during early development in the stony coral Pocillopora damicornis.

scientific article published in April 2016

Terpene Biosynthesis in Red Algae Is Catalyzed by Microbial Type But Not Typical Plant Terpene Synthases

article

Tertiary endosymbiosis driven genome evolution in dinoflagellate algae

scientific article published on 2 March 2005

The Algal Revolution

scientific article

The American cranberry: first insights into the whole genome of a species adapted to bog habitat

scientific article

The Evolution of Homing Endonuclease Genes and Group I Introns in Nuclear rDNA ⬇️

scientific article published on October 31, 2003

The Florida red tide dinoflagellate Karenia brevis: New insights into cellular and molecular processes underlying bloom dynamics

scientific article published on 05 December 2008

The Plastid Genome of the Red Macroalga Grateloupia taiwanensis (Halymeniaceae) ⬇️

scientific article published on July 19, 2013

The exon context and distribution of Euascomycetes rRNA spliceosomal introns ⬇️

scientific article published on April 25, 2003

The first genetic map of the American cranberry: exploration of synteny conservation and quantitative trait loci ⬇️

scientific article published on 08 December 2012

The genomes of polyextremophilic cyanidiales contain 1% horizontally transferred genes with diverse adaptive functions

scientific article published on 31 May 2019

The making of a photosynthetic animal.

scientific article

The mitochondrial genome of Grateloupia taiwanensis (Halymeniaceae, Rhodophyta) and comparative mitochondrial genomics of red algae

scientific article published on October 2014

The natural history of group I introns

scientific article

The origin and establishment of the plastid in algae and plants.

scientific article

The single, ancient origin of chromist plastids

scientific article

The spread of LAGLIDADG homing endonuclease genes in rDNA.

scientific article published on 06 April 2004

The unexpected extremophile: Tolerance to fluctuating salinity in the green alga Picochlorum

Transcriptome analysis provides a blueprint of coral egg and sperm functions

scientific article published on 18 August 2020

Transcriptome profiling of a toxic dinoflagellate reveals a gene-rich protist and a potential impact on gene expression due to bacterial presence

scientific article

Turtle: identifying frequent k-mers with cache-efficient algorithms

scientific article

Unexpected conservation of the RNA splicing apparatus in the highly streamlined genome of Galdieria sulphuraria

scientific article published on 2 April 2018

Unexpected dynamic gene family evolution in algal actins

scientific article published on 13 November 2008

Uniting sex and eukaryote origins in an emerging oxygenic world

scientific article

Unknown to Known: Advancing Knowledge of Coral Gene Function

scientific article published on 24 December 2019

Using complementary approaches to identify trans-domain nuclear gene transfers in the extremophile Galdieria sulphuraria (Rhodophyta).

scientific article published on 5 October 2016

Using natural selection to explore the adaptive potential of Chlamydomonas reinhardtii.

scientific article

Vertical evolution and intragenic spread of lichen-fungal group I introns

scientific article published in July 2002

Whole-genome duplication in an algal symbiont bolsters coral heat tolerance

scientific article published on 19 July 2024

Why we need more algal genomes

scientific article published on 8 January 2015

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