Return of the Lemnaceae: duckweed as a model plant system in the genomics and postgenomics era

Acosta, Kenneth; Appenroth, Klaus J.; Borisjuk, Ljudmilla; Edelman, Marvin; Heinig, Uwe; Jansen, Marcel A. K.; Oyama, Tokitaka; Pasaribu, Buntora; Schubert, Ingo; Sorrels, Shawn; Sree, K. Sowjanya; Xu, Shuqing; Michael, Todd P.; Lam, Eric

doi:10.1093/plcell/koab189

Title: Return of the Lemnaceae: duckweed as a model plant system in the genomics and postgenomics era

Abstract

Abstract The aquatic Lemnaceae family, commonly called duckweed, comprises some of the smallest and fastest growing angiosperms known on Earth. Their tiny size, rapid growth by clonal propagation, and facile uptake of labeled compounds from the media were attractive features that made them a well-known model for plant biology from 1950 to 1990. Interest in duckweed has steadily regained momentum over the past decade, driven in part by the growing need to identify alternative plants from traditional agricultural crops that can help tackle urgent societal challenges, such as climate change and rapid population expansion. Propelled by rapid advances in genomic technologies, recent studies with duckweed again highlight the potential of these small plants to enable discoveries in diverse fields from ecology to chronobiology. Building on established community resources, duckweed is reemerging as a platform to study plant processes at the systems level and to translate knowledge gained for field deployment to address some of society’s pressing needs. This review details the anatomy, development, physiology, and molecular characteristics of the Lemnaceae to introduce them to the broader plant research community. We highlight recent research enabled by Lemnaceae to demonstrate how these plants can be used for quantitative studies of complex processesmore »« less

Authors:

;

; Sree, K. Sowjanya;

;

Publication Date:: Sat Jul 17 00:00:00 EDT 2021

Sponsoring Org.:: USDOE

OSTI Identifier:: 1826201

Alternate Identifier(s):: OSTI ID: 1813480

Grant/Contract Number:: SC0018244; #12116; #NJ12710; #427577435; #438887884; DFG, #427577435 and #438887884

Resource Type:: Published Article

Journal Name:: The Plant Cell

Additional Journal Information:: Journal Name: The Plant Cell Journal Volume: 33 Journal Issue: 10; Journal ID: ISSN 1040-4651

Publisher:: Oxford University Press

Country of Publication:: United States

Language:: English

Citation Formats


                    Acosta, Kenneth, Appenroth, Klaus J., Borisjuk, Ljudmilla, Edelman, Marvin, Heinig, Uwe, Jansen, Marcel A. K., Oyama, Tokitaka, Pasaribu, Buntora, Schubert, Ingo, Sorrels, Shawn, Sree, K. Sowjanya, Xu, Shuqing, Michael, Todd P., and Lam, Eric. Return of the Lemnaceae: duckweed as a model plant system in the genomics and postgenomics era.  United States: N. p., 2021. 
Web.  doi:10.1093/plcell/koab189.

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                    Acosta, Kenneth, Appenroth, Klaus J., Borisjuk, Ljudmilla, Edelman, Marvin, Heinig, Uwe, Jansen, Marcel A. K., Oyama, Tokitaka, Pasaribu, Buntora, Schubert, Ingo, Sorrels, Shawn, Sree, K. Sowjanya, Xu, Shuqing, Michael, Todd P., & Lam, Eric. Return of the Lemnaceae: duckweed as a model plant system in the genomics and postgenomics era.  United States.  https://doi.org/10.1093/plcell/koab189

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                    Acosta, Kenneth, Appenroth, Klaus J., Borisjuk, Ljudmilla, Edelman, Marvin, Heinig, Uwe, Jansen, Marcel A. K., Oyama, Tokitaka, Pasaribu, Buntora, Schubert, Ingo, Sorrels, Shawn, Sree, K. Sowjanya, Xu, Shuqing, Michael, Todd P., and Lam, Eric. Sat .  
"Return of the Lemnaceae: duckweed as a model plant system in the genomics and postgenomics era".  United States.  https://doi.org/10.1093/plcell/koab189.

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@article{osti_1826201,

  title        = {Return of the Lemnaceae: duckweed as a model plant system in the genomics and postgenomics era},

  author       = {Acosta, Kenneth and Appenroth, Klaus J. and Borisjuk, Ljudmilla and Edelman, Marvin and Heinig, Uwe and Jansen, Marcel A. K. and Oyama, Tokitaka and Pasaribu, Buntora and Schubert, Ingo and Sorrels, Shawn and Sree, K. Sowjanya and Xu, Shuqing and Michael, Todd P. and Lam, Eric},

  abstractNote = {Abstract The aquatic Lemnaceae family, commonly called duckweed, comprises some of the smallest and fastest growing angiosperms known on Earth. Their tiny size, rapid growth by clonal propagation, and facile uptake of labeled compounds from the media were attractive features that made them a well-known model for plant biology from 1950 to 1990. Interest in duckweed has steadily regained momentum over the past decade, driven in part by the growing need to identify alternative plants from traditional agricultural crops that can help tackle urgent societal challenges, such as climate change and rapid population expansion. Propelled by rapid advances in genomic technologies, recent studies with duckweed again highlight the potential of these small plants to enable discoveries in diverse fields from ecology to chronobiology. Building on established community resources, duckweed is reemerging as a platform to study plant processes at the systems level and to translate knowledge gained for field deployment to address some of society’s pressing needs. This review details the anatomy, development, physiology, and molecular characteristics of the Lemnaceae to introduce them to the broader plant research community. We highlight recent research enabled by Lemnaceae to demonstrate how these plants can be used for quantitative studies of complex processes and for revealing potentially novel strategies in plant defense and genome maintenance.},

  doi          = {10.1093/plcell/koab189},

  journal      = {The Plant Cell},

  number       = 10,

  volume       = 33,

  place        = {United States},

  year         = {Sat Jul 17 00:00:00 EDT 2021},

  month        = {Sat Jul 17 00:00:00 EDT 2021}

}

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Abstract The aquatic Lemnaceae family, commonly called duckweed, comprises some of the smallest and fastest growing angiosperms known on Earth. Their tiny size, rapid growth by clonal propagation, and facile uptake of labeled compounds from the media were attractive features that made them a well-known model for plant biology from 1950 to 1990. Interest in duckweed has steadily regained momentum over the past decade, driven in part by the growing need to identify alternative plants from traditional agricultural crops that can help tackle urgent societal challenges, such as climate change and rapid population expansion. Propelled by rapid advances in genomicmore »« less
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Title: Return of the Lemnaceae: duckweed as a model plant system in the genomics and postgenomics era

Abstract

Citation Formats

Wolffia arrhiza as a Possible Source of Inexpensive Protein journal, August 1971

Skimming the surface: duckweed as a model system in ecology and evolution journal, November 2018

Nonphotosynthetic Light Requirement in Lemna minor and Its Partial Satisfaction by Kinetin journal, July 1957

Expression and characterization of Acidothermus cellulolyticus E1 endoglucanase in transgenic duckweed Lemna minor 8627 journal, November 2007

Hiding in plain sight: Koshicola spirodelophila gen. et sp. nov. (Chaetopeltidales, Chlorophyceae), a novel green alga associated with the aquatic angiosperm Spirodela polyrhiza journal, April 2016

Genetic characterization and barcoding of taxa in the genera Landoltia and Spirodela (Lemnaceae) by three plastidic markers and amplified fragment length polymorphism (AFLP) journal, January 2015

The Turnover of Nucleic Acids in Lemna minor journal, June 1970

Anatomy and Ultrastructure of Wolffia columbiana and Wolffia borealis, Two Nonvascular Aquatic Angiosperms journal, March 1998

Structure, variation, and assembly of the root-associated microbiomes of rice journal, January 2015

Development of the root system inSpirodela polyrhiza (L.) schleiden (Lemnaceae) journal, October 2007

Defoliation responses of western wheatgrass populations with diverse histories of prairie dog grazing journal, March 1983

The Lemnaceae, or duckweeds: A review of the descriptive and experimental literature journal, April 1961

Indole-3-Acetic Acid Metabolism in Lemna gibba Undergoes Dynamic Changes in Response to Growth Temperature journal, April 2002

“Step by step”: high frequency short-distance epizoochorous dispersal of aquatic macrophytes journal, October 2016

Efficient genetic transformation and CRISPR /Cas9‐mediated genome editing in Lemna aequinoctialis journal, May 2019

Genetic characterization and barcoding of taxa in the genus Wolffia Horkel ex Schleid. (Lemnaceae) as revealed by two plastidic markers and amplified fragment length polymorphism (AFLP) journal, October 2012

Plant evolution and environmental adaptation unveiled by long-read whole-genome sequencing of Spirodela journal, September 2019

Mechanistic and economic assessment of polyester wastewater treatment via baffled duckweed pond journal, June 2020

Chromosome-scale genome assembly for the duckweed Spirodela intermedia, integrating cytogenetic maps, PacBio and Oxford Nanopore libraries journal, November 2020

Energy-efficient and environmentally friendly production of starch-rich duckweed biomass using nitrogen-limited cultivation journal, April 2020

Convergent Loss of an EDS1/PAD4 Signaling Pathway in Several Plant Lineages Reveals Coevolved Components of Plant Immunity and Drought Response journal, May 2020

Establishing Causality: Opportunities of Synthetic Communities for Plant Microbiome Research journal, August 2017

A taxonomic revision of Lemna sect. Uninerves (Lemnaceae) journal, February 2020

Adventitious Roots and Lateral Roots: Similarities and Differences journal, April 2014

Research priorities for harnessing plant microbiomes in sustainable agriculture journal, March 2017

Generating a high-confidence reference genome map of the Greater Duckweed by integration of cytogenomic, optical mapping, and Oxford Nanopore technologies journal, September 2018

Improving biomass and starch accumulation of bioenergy crop duckweed (Landoltia punctata) by abscisic acid application journal, June 2018

The Spirodela polyrhiza genome reveals insights into its neotenous reduction fast growth and aquatic lifestyle journal, February 2014

Influence of Nutrient Deficiency and Light on Turion Formation in Spirodela polyrhizass (L.) SCHLEIDEN journal, January 1989

A Morning-Specific Phytohormone Gene Expression Program underlying Rhythmic Plant Growth journal, September 2008

A Single-Cell Bioluminescence Imaging System for Monitoring Cellular Gene Expression in a Plant Body journal, October 2013

Transcriptional analysis reveals potential genes and regulatory networks involved in salicylic acid-induced flowering in duckweed (Lemna gibba) journal, October 2020

Population genomics of the facultatively asexual duckweed Spirodela polyrhiza journal, June 2019

The invasive duckweed Lemna minuta Kunth displays a different light utilisation strategy than native Lemna minor Linnaeus journal, April 2018

The first draft genome of the aquatic model plant Lemna minor opens the route for future stress physiology research and biotechnological applications journal, November 2015

Complete Sequence of the Duckweed (Lemna minor) Chloroplast Genome: Structural Organization and Phylogenetic Relationships to Other Angiosperms journal, May 2008

Ecological and evolutionary significance of genomic GC content diversity in monocots journal, September 2014

Qualitative and Quantitative Analyses of Flavonoids in Spirodela polyrrhiza by High-performance Liquid Chromatography Coupled with Mass Spectrometry: Chemical Analysis for Spirodela polyrrhiza by LC/MS journal, April 2011

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Whole angiosperms Wolffia columbiana disperse by gut passage through wildfowl in South America journal, December 2018

Select and resequence reveals relative fitness of bacteria in symbiotic and free-living environments journal, February 2018

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Biodiversity and Climate Change: Integrating Evolutionary and Ecological Responses of Species and Communities journal, December 2010

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Natural Bacterial Assemblages in Arabidopsis thaliana Tissues Become More Distinguishable and Diverse during Host Development journal, February 2021

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Bacterial Production of Indole Related Compounds Reveals Their Role in Association Between Duckweeds and Endophytes journal, July 2018

Regulation of protein metabolism: Coupling of photosynthetic electron transport to in vivo degradation of the rapidly metabolized 32-kilodalton protein of the chloroplast membranes journal, March 1984

Global Profiling of Rice and Poplar Transcriptomes Highlights Key Conserved Circadian-Controlled Pathways and cis-Regulatory Modules journal, June 2011

Changing weather conditions and floating plants in temperate drainage ditches journal, March 2013

Riding invasion waves: Spatial and temporal patterns of the invasive Lemna minuta from its arrival to its spread across Europe journal, November 2018

Duckweeds for water remediation and toxicity testing journal, August 2015

Variation in genome size, cell and nucleus volume, chromosome number and rDNA loci among duckweeds journal, March 2019

Phylogenic study of Lemnoideae (duckweeds) through complete chloroplast genomes for eight accessions journal, January 2017

Sustainable Biodegradation of Phenol by Acinetobacter calcoaceticus P23 Isolated from the Rhizosphere of Duckweed Lemna aoukikusa journal, August 2010

Abscisic-acid-induced turion formation in Spirodela polyrrhiza L III. Specific changes in protein synthesis and translatable RNA during turion development journal, March 1984

High-Throughput Sequencing of Three Lemnoideae (Duckweeds) Chloroplast Genomes from Total DNA journal, September 2011

Determination of the Rates of Protein Synthesis and Degradation in Lemna minor journal, January 1972

A protocol for efficient callus induction and stable transformation of Spirodela polyrhiza (L.) Schleiden using Agrobacterium tumefaciens journal, December 2018

The complete chloroplast genome of greater duckweed (Spirodela polyrhiza 7498) using PacBio long reads: insights into the chloroplast evolution and transcription regulation journal, January 2020

Nutrient Value of Leaf vs. Seed journal, July 2016

Calibrating Duckweeds: Light, Clocks, Metabolism, Flowering journal, August 1976

Phytochrome-regulated Starch Degradation in Germinating Turions of Spirodela polyrhiza journal, July 1997

Selection and Characterization of [alpha]-Methyltryptophan-Resistant Lines of Lemna gibba Showing a Rapid Rate of Indole-3-Acetic Acid Turnover journal, January 1995

Experimental Control of Flowering in Lemna i. General Methods. Photoperiodism in l. Pepusilla 6746 journal, June 1959

Ultrastructural Features of Developing Sieve Elements in Lemna Minor L.-The Protoplast journal, September 1976

Nutritional Value of the Duckweed Species of the Genus Wolffia (Lemnaceae) as Human Food journal, October 2018

Engineering Crops without Genome Integration Using Nanotechnology journal, July 2019

High-efficiency thermal asymmetric interlaced PCR for amplification of unknown flanking sequences journal, November 2007

Wolffia arrhiza as a Possible Source of Inexpensive Protein
journal, August 1971

Skimming the surface: duckweed as a model system in ecology and evolution
journal, November 2018

Nonphotosynthetic Light Requirement in Lemna minor and Its Partial Satisfaction by Kinetin
journal, July 1957

Expression and characterization of Acidothermus cellulolyticus E1 endoglucanase in transgenic duckweed Lemna minor 8627
journal, November 2007

Hiding in plain sight: Koshicola spirodelophila gen. et sp. nov. (Chaetopeltidales, Chlorophyceae), a novel green alga associated with the aquatic angiosperm Spirodela polyrhiza
journal, April 2016

Genetic characterization and barcoding of taxa in the genera Landoltia and Spirodela (Lemnaceae) by three plastidic markers and amplified fragment length polymorphism (AFLP)
journal, January 2015

The Turnover of Nucleic Acids in Lemna minor
journal, June 1970

Anatomy and Ultrastructure of Wolffia columbiana and Wolffia borealis, Two Nonvascular Aquatic Angiosperms
journal, March 1998

Structure, variation, and assembly of the root-associated microbiomes of rice
journal, January 2015

Development of the root system inSpirodela polyrhiza (L.) schleiden (Lemnaceae)
journal, October 2007

Defoliation responses of western wheatgrass populations with diverse histories of prairie dog grazing
journal, March 1983

The Lemnaceae, or duckweeds: A review of the descriptive and experimental literature
journal, April 1961

Indole-3-Acetic Acid Metabolism in Lemna gibba Undergoes Dynamic Changes in Response to Growth Temperature
journal, April 2002

“Step by step”: high frequency short-distance epizoochorous dispersal of aquatic macrophytes
journal, October 2016

Efficient genetic transformation and CRISPR /Cas9‐mediated genome editing in Lemna aequinoctialis
journal, May 2019

Genetic characterization and barcoding of taxa in the genus Wolffia Horkel ex Schleid. (Lemnaceae) as revealed by two plastidic markers and amplified fragment length polymorphism (AFLP)
journal, October 2012

Plant evolution and environmental adaptation unveiled by long-read whole-genome sequencing of Spirodela
journal, September 2019

Mechanistic and economic assessment of polyester wastewater treatment via baffled duckweed pond
journal, June 2020

Chromosome-scale genome assembly for the duckweed Spirodela intermedia, integrating cytogenetic maps, PacBio and Oxford Nanopore libraries
journal, November 2020

Energy-efficient and environmentally friendly production of starch-rich duckweed biomass using nitrogen-limited cultivation
journal, April 2020

Convergent Loss of an EDS1/PAD4 Signaling Pathway in Several Plant Lineages Reveals Coevolved Components of Plant Immunity and Drought Response
journal, May 2020

Establishing Causality: Opportunities of Synthetic Communities for Plant Microbiome Research
journal, August 2017

A taxonomic revision of Lemna sect. Uninerves (Lemnaceae)
journal, February 2020

Adventitious Roots and Lateral Roots: Similarities and Differences
journal, April 2014

Research priorities for harnessing plant microbiomes in sustainable agriculture
journal, March 2017

Generating a high-confidence reference genome map of the Greater Duckweed by integration of cytogenomic, optical mapping, and Oxford Nanopore technologies
journal, September 2018

Improving biomass and starch accumulation of bioenergy crop duckweed (Landoltia punctata) by abscisic acid application
journal, June 2018

The Spirodela polyrhiza genome reveals insights into its neotenous reduction fast growth and aquatic lifestyle
journal, February 2014

Influence of Nutrient Deficiency and Light on Turion Formation in Spirodela polyrhizass (L.) SCHLEIDEN
journal, January 1989

A Morning-Specific Phytohormone Gene Expression Program underlying Rhythmic Plant Growth
journal, September 2008

A Single-Cell Bioluminescence Imaging System for Monitoring Cellular Gene Expression in a Plant Body
journal, October 2013

Transcriptional analysis reveals potential genes and regulatory networks involved in salicylic acid-induced flowering in duckweed (Lemna gibba)
journal, October 2020

Population genomics of the facultatively asexual duckweed Spirodela polyrhiza
journal, June 2019

The invasive duckweed Lemna minuta Kunth displays a different light utilisation strategy than native Lemna minor Linnaeus
journal, April 2018

The first draft genome of the aquatic model plant Lemna minor opens the route for future stress physiology research and biotechnological applications
journal, November 2015

Complete Sequence of the Duckweed (Lemna minor) Chloroplast Genome: Structural Organization and Phylogenetic Relationships to Other Angiosperms
journal, May 2008

Ecological and evolutionary significance of genomic GC content diversity in monocots
journal, September 2014

Qualitative and Quantitative Analyses of Flavonoids in Spirodela polyrrhiza by High-performance Liquid Chromatography Coupled with Mass Spectrometry: Chemical Analysis for Spirodela polyrrhiza by LC/MS
journal, April 2011

Transformation of Wolffia arrhiza (L.) Horkel ex Wimm
journal, July 2015

Whole angiosperms Wolffia columbiana disperse by gut passage through wildfowl in South America
journal, December 2018

Select and resequence reveals relative fitness of bacteria in symbiotic and free-living environments
journal, February 2018

The duckweed Wolffia microscopica: A unique aquatic monocot
journal, January 2015

DLEMMA-MS-Imaging for Identification of Spatially Localized Metabolites and Metabolic Network Map Reconstruction
journal, July 2018

Biodiversity and Climate Change: Integrating Evolutionary and Ecological Responses of Species and Communities
journal, December 2010

Stimulation of nitrogen removal in the rhizosphere of aquatic duckweed by root exudate components
journal, November 2013

Natural Bacterial Assemblages in Arabidopsis thaliana Tissues Become More Distinguishable and Diverse during Host Development
journal, February 2021

How fast can angiosperms grow? Species and clonal diversity of growth rates in the genus Wolffia (Lemnaceae)
journal, September 2015

Sulfur-containing Compounds in Lemna perpusilla 6746 Grown at a Range of Sulfate Concentrations
journal, October 1978

Phyllosphere Bacterial Community of Floating Macrophytes in Paddy Soil Environments as Revealed by Illumina High-Throughput Sequencing
journal, October 2014

A critique for eco‐evolutionary dynamics
journal, November 2018

An Indexed, Mapped Mutant Library Enables Reverse Genetics Studies of Biological Processes in Chlamydomonas reinhardtii
journal, January 2016

Phytostat for the Growth of Lemna in Semicontinuous Culture with Low Sulfate
journal, October 1978

Colonization and Competition Dynamics of Plant Growth-Promoting/Inhibiting Bacteria in the Phytosphere of the Duckweed Lemna minor
journal, January 2019

Expression and Immunogenicity of M2e Peptide of Avian Influenza Virus H5N1 Fused to Ricin Toxin B Chain Produced in Duckweed Plants
journal, February 2018

Bacterial Production of Indole Related Compounds Reveals Their Role in Association Between Duckweeds and Endophytes
journal, July 2018

Regulation of protein metabolism: Coupling of photosynthetic electron transport to in vivo degradation of the rapidly metabolized 32-kilodalton protein of the chloroplast membranes
journal, March 1984

Global Profiling of Rice and Poplar Transcriptomes Highlights Key Conserved Circadian-Controlled Pathways and cis-Regulatory Modules
journal, June 2011

Changing weather conditions and floating plants in temperate drainage ditches
journal, March 2013

Riding invasion waves: Spatial and temporal patterns of the invasive Lemna minuta from its arrival to its spread across Europe
journal, November 2018

Duckweeds for water remediation and toxicity testing
journal, August 2015

Variation in genome size, cell and nucleus volume, chromosome number and rDNA loci among duckweeds
journal, March 2019

Phylogenic study of Lemnoideae (duckweeds) through complete chloroplast genomes for eight accessions
journal, January 2017

Sustainable Biodegradation of Phenol by Acinetobacter calcoaceticus P23 Isolated from the Rhizosphere of Duckweed Lemna aoukikusa
journal, August 2010

Abscisic-acid-induced turion formation in Spirodela polyrrhiza L III. Specific changes in protein synthesis and translatable RNA during turion development
journal, March 1984

High-Throughput Sequencing of Three Lemnoideae (Duckweeds) Chloroplast Genomes from Total DNA
journal, September 2011

Determination of the Rates of Protein Synthesis and Degradation in Lemna minor
journal, January 1972

A protocol for efficient callus induction and stable transformation of Spirodela polyrhiza (L.) Schleiden using Agrobacterium tumefaciens
journal, December 2018

The complete chloroplast genome of greater duckweed (Spirodela polyrhiza 7498) using PacBio long reads: insights into the chloroplast evolution and transcription regulation
journal, January 2020

Nutrient Value of Leaf vs. Seed
journal, July 2016

Calibrating Duckweeds: Light, Clocks, Metabolism, Flowering
journal, August 1976

Phytochrome-regulated Starch Degradation in Germinating Turions of Spirodela polyrhiza
journal, July 1997

Selection and Characterization of [alpha]-Methyltryptophan-Resistant Lines of Lemna gibba Showing a Rapid Rate of Indole-3-Acetic Acid Turnover
journal, January 1995

Experimental Control of Flowering in Lemna i. General Methods. Photoperiodism in l. Pepusilla 6746
journal, June 1959

Ultrastructural Features of Developing Sieve Elements in Lemna Minor L.-The Protoplast
journal, September 1976

Nutritional Value of the Duckweed Species of the Genus Wolffia (Lemnaceae) as Human Food
journal, October 2018

Engineering Crops without Genome Integration Using Nanotechnology
journal, July 2019

High-efficiency thermal asymmetric interlaced PCR for amplification of unknown flanking sequences
journal, November 2007

The WEIZMASS spectral library for high-confidence metabolite identification
journal, August 2016

Duckweed for Human Nutrition: No Cytotoxic and No Anti-Proliferative Effects on Human Cell Lines
journal, March 2019

Experiments with duckweed-moth systems suggest that global warming may reduce rather than promote herbivory
journal, January 2006