Direct comparison of culture-dependent and culture-independent molecular approaches reveal the diversity of fungal endophytic communities in stems of grapevine (Vitis vinifera)

Biodiversity of fungi on Vitis vinifera L. revealed by traditional and high-resolution culture-independent approaches

(2018) Ruvishika S. Jayawardena et al.   FUNGAL DIVERSITY

Comparison of methods for identification of microbial communities in book collections: Culture-dependent (sequencing and MALDI-TOF MS) and culture-independent (Illumina MiSeq)

(2018) Lucia Kraková et al.   INTERNATIONAL BIODETERIORATION & BIODEGRADATION

Yeast diversity during the fermentation of Andean chicha : A comparison of high-throughput sequencing and culture-dependent approaches

(2017) Lucía M. Mendoza et al.   FOOD MICROBIOLOGY

Dismantling Marchandiomphalina into Agonimia (Verrucariaceae) and Lawreymyces gen. nov. (Corticiaceae): setting a precedent to the formal recognition of thousands of voucherless fungi based on type sequences

(2017) Robert Lücking et al.   FUNGAL DIVERSITY

Plant age and seasonal timing determine endophyte growth and alkaloid biosynthesis

(2017) Benjamin Fuchs et al.   Fungal Ecology

Molecular evidence strongly supports deadwood-inhabiting fungi exhibiting unexpected tree species preferences in temperate forests

(2017) Witoon Purahong et al.   ISME Journal

Application of High-Throughput Internal Transcribed Spacer rRNA Metagenomics Analysis in Deciphering Endophytic Fungi Diversity of Dendrobium Officinale

(2017) Wenhong Liu et al.   Journal of Biobased Materials and Bioenergy

Host Specificity of Endophytic Mycobiota of Wild Nicotiana Plants from Arid Regions of Northern Australia

(2017) Khondoker M. G. Dastogeer et al.   MICROBIAL ECOLOGY

Disentangling environmental and host sources of fungal endophyte communities in an experimental beachgrass study

(2017) Aaron S. David et al.   MOLECULAR ECOLOGY

Genetic monitoring of open ocean biodiversity: An evaluation of DNA metabarcoding for processing continuous plankton recorder samples

(2017) Bruce E. Deagle et al.   Molecular Ecology Resources

Effects of Growth Media on the Diversity of Culturable Fungi from Lichens

(2017) Lucia Muggia et al.   MOLECULES

Endophytic fungi associated with roots of date palm ( Phoenix dactylifera ) in coastal dunes

(2017) Fadila Mohamed Mahmoud et al.   REVISTA IBEROAMERICANA DE MICOLOGIA

Comparison of Standard Culture-Based Method to Culture-Independent Method for Evaluation of Hygiene Effects on the Hand Microbiome

(2017) C. Zapka et al.   mBio

DNA metabarcoding for high-throughput monitoring of estuarine macrobenthic communities

(2017) Jorge Lobo et al.   Scientific Reports

Characterization of Unexplored Deadwood Mycobiome in Highly Diverse Subtropical Forests Using Culture-independent Molecular Technique

(2017) Witoon Purahong et al.   Frontiers in Microbiology

The Grapevine and Wine Microbiome: Insights from High-Throughput Amplicon Sequencing

(2017) Horatio H. Morgan et al.   Frontiers in Microbiology

A Phloem-Feeding Insect Transfers Bacterial Endophytic Communities between Grapevine Plants

(2017) Sebastiàn Lòpez-Fernàndez et al.   Frontiers in Microbiology

Accurate Estimation of Fungal Diversity and Abundance through Improved Lineage-Specific Primers Optimized for Illumina Amplicon Sequencing

(2016) D. Lee Taylor et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Identification of antibacterial peptides from endophytic microbiome

(2016) M. V. Tejesvi et al.   APPLIED MICROBIOLOGY AND BIOTECHNOLOGY

Various fungal communities colonise the functional wood tissues of old grapevines externally free from grapevine trunk disease symptoms

(2016) E. Bruez et al.   AUSTRALIAN JOURNAL OF GRAPE AND WINE RESEARCH

Exploring potential bacterial and fungal biocontrol agents transmitted from seeds to sprouts of wheat

(2016) Yali Huang et al.   BIOLOGICAL CONTROL

Diversity of fungal endophytes in non-native Phragmites australis in the Great Lakes

(2016) Keith Clay et al.   BIOLOGICAL INVASIONS

Spatial and seasonal influences on culturable endophytic mycobiota associated with different tissues of Eugenia jambolana Lam. and their antibacterial activity against MDR strains

(2016) Manila Yadav et al.   BMC MICROBIOLOGY

Dissecting endophytic lifestyle along the parasitism/mutualism continuum in Arabidopsis

(2016) Philipp H Fesel et al.   CURRENT OPINION IN MICROBIOLOGY

Fungal endophytic communities associated to the phyllosphere of grapevine cultivars under different types of management

(2016) Carla Marisa Reis Varanda et al.   Fungal Biology

Fungal diversity notes 367–490: taxonomic and phylogenetic contributions to fungal taxa

(2016) Kevin D. Hyde et al.   FUNGAL DIVERSITY

New evidence for broad trophic status of leaf endophytic fungi of Quercus gambelii

(2016) Ismaiel Szink et al.   Fungal Ecology

Dark septate endophytic fungi of native plants along an altitudinal gradient in the Brazilian Atlantic forest

(2016) Joice Andrade Bonfim et al.   Fungal Ecology

FUNGuild: An open annotation tool for parsing fungal community datasets by ecological guild

(2016) Nhu H. Nguyen et al.   Fungal Ecology

Kribbella pittospori sp. nov., an endophytic actinobacterium isolated from the surface-sterilized stem of an Australian native apricot tree, Pittosporum angustifolium

(2016) Onuma Kaewkla et al.   INTERNATIONAL JOURNAL OF SYSTEMATIC AND EVOLUTIONARY MICROBIOLOGY

Plant Host and Geographic Location Drive Endophyte Community Composition in the Face of Perturbation

(2016) Natalie Christian et al.   MICROBIAL ECOLOGY

Diversity of bacterial endophytes in 3 and 15 year-old grapevines of Vitis vinifera cv. Corvina and their potential for plant growth promotion and phytopathogen control

(2016) Marco Andreolli et al.   MICROBIOLOGICAL RESEARCH

Life in leaf litter: novel insights into community dynamics of bacteria and fungi during litter decomposition

(2016) Witoon Purahong et al.   MOLECULAR ECOLOGY

Cadophora species associated with wood-decay of grapevine in North America

(2015) Renaud Travadon et al.   Fungal Biology

Linking molecular deadwood-inhabiting fungal diversity and community dynamics to ecosystem functions and processes in Central European forests

(2015) Björn Hoppe et al.   FUNGAL DIVERSITY

Fungal diversity notes 111–252—taxonomic and phylogenetic contributions to fungal taxa

(2015) Hiran A. Ariyawansa et al.   FUNGAL DIVERSITY

Plant-associated fungal communities in the light of meta’omics

(2015) Derek Peršoh   FUNGAL DIVERSITY

Fungal diversity notes 1–110: taxonomic and phylogenetic contributions to fungal species

(2015) Jian Kui Liu et al.   FUNGAL DIVERSITY

Biodiversity of endophytic fungi in different leaf ages of Calotropis procera and their antimicrobial activity

(2015) T.L. Nascimento et al.   Fungal Ecology

Using direct amplification and next-generation sequencing technology to explore foliar endophyte communities in experimentally inoculated western white pines

(2015) Lorinda S. Bullington et al.   Fungal Ecology

A Comprehensive, Automatically Updated Fungal ITS Sequence Dataset for Reference-Based Chimera Control in Environmental Sequencing Efforts

(2015) R. Henrik Nilsson et al.   MICROBES AND ENVIRONMENTS

The Hidden World within Plants: Ecological and Evolutionary Considerations for Defining Functioning of Microbial Endophytes

(2015) Pablo R. Hardoim et al.   MICROBIOLOGY AND MOLECULAR BIOLOGY REVIEWS

Interaction type influences ecological network structure more than local abiotic conditions: evidence from endophytic and endolichenic fungi at a continental scale

(2015) Pierre-Luc Chagnon et al.   OECOLOGIA

Endophyte community composition is associated with dieback occurrence in an invasive tree

(2015) Tracey V. Steinrucken et al.   PLANT AND SOIL

Fungal endophytes: modifiers of plant disease

(2015) Posy E. Busby et al.   PLANT MOLECULAR BIOLOGY

Sequence-based Analysis of the Vitis vinifera L. cv Cabernet Sauvignon Grape Must Mycobiome in Three South African Vineyards Employing Distinct Agronomic Systems

(2015) Mathabatha E. Setati et al.   Frontiers in Microbiology

Diversity of Endophytic Fungi Associated with the Foliar Tissue of a Hemi-Parasitic Plant Macrosolen cochinchinensis

(2014) Sheng-Liang Zhou et al.   CURRENT MICROBIOLOGY

One stop shop: backbones trees for important phytopathogenic genera: I (2014)

(2014) Kevin D. Hyde et al.   FUNGAL DIVERSITY

Symptomless Endophytic Fungi Suppress Endogenous Levels of Salicylic Acid and Interact With the Jasmonate-Dependent Indirect Defense Traits of Their Host, Lima Bean (Phaseolus lunatus)

(2014) Ariana L. Navarro-Meléndez et al.   JOURNAL OF CHEMICAL ECOLOGY

Unravelling the Diversity of Grapevine Microbiome

(2014) Cátia Pinto et al.   PLoS One

Towards a unified paradigm for sequence-based identification of fungi

(2013) Urmas Kõljalg et al.   MOLECULAR ECOLOGY

UPARSE: highly accurate OTU sequences from microbial amplicon reads

(2013) Robert C Edgar   NATURE METHODS

Intraspecific ITS Variability in the Kingdom Fungi as Expressed in the International Sequence Databases and Its Implications for Molecular Species Identification

(2012) R. Henrik Nilsson et al.   Evolutionary Bioinformatics

The endophytic mycobiota of Arabidopsis thaliana

(2012) Elena García et al.   FUNGAL DIVERSITY

Endophytic fungi from Vitis labrusca L. ‘Niagara Rosada’) and its potential for the biological control of Fusarium oxysporum

(2012) M.C.P. Brum et al.   GENETICS AND MOLECULAR RESEARCH

Quality-filtering vastly improves diversity estimates from Illumina amplicon sequencing

(2012) Nicholas A Bokulich et al.   NATURE METHODS

Nuclear ribosomal internal transcribed spacer (ITS) region as a universal DNA barcode marker for Fungi

(2012) C. L. Schoch et al.   PROCEEDINGS OF THE NATIONAL ACADEMY OF SCIENCES OF THE UNITED STATES OF AMERICA

Age-dependent Distribution of Fungal Endophytes in Panax ginseng Roots Cultivated in Korea

(2012) Young-Hwan Park et al.   Journal of Ginseng Research

Five simple guidelines for establishing basic authenticity and reliability of newly generated fungal ITS sequences

(2012) R. Henrik Nilsson et al.   MycoKeys

Functional and Structural Microbial Diversity in Organic and Conventional Viticulture: Organic Farming Benefits Natural Biocontrol Agents

(2011) Florian Schmid et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

Restructuring of Endophytic Bacterial Communities in Grapevine Yellows-Diseased and Recovered Vitis vinifera L. Plants

(2011) Daniela Bulgari et al.   APPLIED AND ENVIRONMENTAL MICROBIOLOGY

UCHIME improves sensitivity and speed of chimera detection

(2011) Robert C. Edgar et al.   BIOINFORMATICS

FLASH: fast length adjustment of short reads to improve genome assemblies

(2011) T. Magoc et al.   BIOINFORMATICS

From morphology to molecular biology: can we use sequence data to identify fungal endophytes?

(2011) Thida Win Ko Ko et al.   FUNGAL DIVERSITY

Bioactivity and genetic diversity of endophytic fungi in Rhododendron tomentosum Harmaja

(2011) Mysore V. Tejesvi et al.   FUNGAL DIVERSITY

Chimeric 16S rRNA sequence formation and detection in Sanger and 454-pyrosequenced PCR amplicons

(2011) B. J. Haas et al.   GENOME RESEARCH

Endophytes of Grapevine Flowers, Berries, and Seeds: Identification of Cultivable Bacteria, Comparison with Other Plant Parts, and Visualization of Niches of Colonization

(2011) Stéphane Compant et al.   MICROBIAL ECOLOGY

Can leaf degrading enzymes provide evidence that endophytic fungi becoming saprobes?

(2010) Itthayakorn Promputtha et al.   FUNGAL DIVERSITY

Root endophytes along a primary succession gradient in northern Finland

(2010) M. V. Tejesvi et al.   FUNGAL DIVERSITY

Foliar endophytic fungi from Hevea brasiliensis and their antagonism on Microcyclus ulei

(2010) Anderson C. S. Rocha et al.   FUNGAL DIVERSITY

The endophytic mycota associated with Vitis vinifera in central Spain

(2010) Vicente González et al.   FUNGAL DIVERSITY

Biodiversity of fungal endophyte communities inhabiting switchgrass (Panicum virgatum L.) growing in the native tallgrass prairie of northern Oklahoma

(2010) Sita R. Ghimire et al.   FUNGAL DIVERSITY

Endophytic mycobiota of leaves and roots of the grass Holcus lanatus

(2010) S. Sánchez Márquez et al.   FUNGAL DIVERSITY

Effects of fungal endophytes on grass and non-grass litter decomposition rates

(2010) Witoon Purahong et al.   FUNGAL DIVERSITY

Identifying wood-inhabiting fungi with 454 sequencing – what is the probability that BLAST gives the correct species?

(2010) Otso Ovaskainen et al.   Fungal Ecology

Multilocus species identification and fungal DNA barcoding: insights from blue stain fungal symbionts of the mountain pine beetle

(2010) AMANDA D. ROE et al.   Molecular Ecology Resources

QIIME allows analysis of high-throughput community sequencing data

(2010) J Gregory Caporaso et al.   NATURE METHODS

What is the value of ITS sequence data in Colletotrichum systematics and species diagnosis? A case study using the falcate-spored graminicolous Colletotrichum group

(2009) Jo Anne Crouch et al.   MYCOLOGIA

DNA-Dependent Detection of the Grapevine Fungal EndophytesAureobasidium pullulansandEpicoccum nigrum

(2009) M. Martini et al.   PLANT DISEASE

Recent developments in the MAFFT multiple sequence alignment program

(2008) K. Katoh et al.   BRIEFINGS IN BIOINFORMATICS

Translocation of nitrogen and carbon integrates biotic crust and grass production in desert grassland

(2008) Laura E. Green et al.   JOURNAL OF ECOLOGY

Strains ofAureobasidium pullulansCan Lower Ochratoxin A Contamination in Wine Grapes

(2008) D. V. de Felice et al.   PHYTOPATHOLOGY