Search filters

List of works by Hikmet Budak

A Comprehensive Prescription for Plant miRNA Identification

scientific article published on January 2016

A large-scale chromosome-specific SNP discovery guideline

scientific article published on 29 November 2016

A large-scale multiomics analysis of wheat stem solidness and the wheat stem sawfly feeding response, and syntenic associations in barley, Brachypodium, and rice.

scientific article published on 22 February 2018

A microsatellite marker for yellow rust resistance in wheat

article by F. Akfirat et al published June 2010 in Cereal Research Communications

Abiotic stress miRNomes in the Triticeae.

scientific article

Agrostis

Amplification yield enhancement of short DNA templates using bulk and surface-attached amine-functionalized single-wall carbon nanotubes

Analysis and Exploitation of Cereal Genomes with the Aid of Brachypodium

Analysis of expressed sequence tags (ESTs) from Agrostis species obtained using sequence related amplified polymorphism

scientific article

Application of Tissue Culture and Transformation Techniques in Model Species Brachypodium distachyon

scientific article published in January 2018

Assembly and Annotation of Transcriptome Provided Evidence of miRNA Mobility between Wheat and Wheat Stem Sawfly

scientific article published on 26 September 2017

Author Correction: Mapping QTLs conferring salt tolerance and micronutrient concentrations at seedling stage in wheat

scientific article published on 22 October 2020

Autophagy-related gene, TdAtg8, in wild emmer wheat plays a role in drought and osmotic stress response

scientific article published on 9 May 2012

Bioconjugated nanomaterials for monitoring food contamination

Brachypodium as a model for the grasses: today and the future

scientific article published on 19 July 2011

Brachypodium genomics

scientific article

Breeding Pure Line Cultivars

CRISPR/Cas9 genome editing in wheat

scientific article published on 16 September 2017

CRISPR/Cas9 in plants: at play in the genome and at work for crop improvement

article

Capturing Wheat Phenotypes at the Genome Level

scientific article published in 2022

Characterization of a dual biotin tag for improved single stranded DNA production

article

Chromosome-based survey sequencing reveals the genome organization of wild wheat progenitor Triticum dicoccoides

scientific article published on 13 June 2018

Chromosome-scale genome assembly provides insights into rye biology, evolution and agronomic potential

scientific article published on 18 March 2021

Comparative analysis of seeded and vegetative biotype buffalograsses based on phylogenetic relationship using ISSRs, SSRs, RAPDs, and SRAPs

scientific article

Comparative metabolite profiling of drought stress in roots and leaves of seven Triticeae species

scientific article published on 15 December 2017

Conserved microRNAs and their targets in model grass species Brachypodium distachyon

scientific article

Correction to: A large-scale multiomics analysis of wheat stem solidness and the wheat stem sawfly feeding response, and syntenic associations in barley, Brachypodium, and rice

scientific article published on 01 September 2018

Dehydration stress-responsive miRNA in Brachypodium distachyon: evident by genome-wide screening of microRNAs expression.

scientific article

Development of SSR markers and analysis of diversity in Turkish populations of Brachypodium distachyon

scientific article

Differential expression of seven conserved microRNAs in response to abiotic stress and their regulatory network in Helianthus annuus

scientific article published on 17 September 2015

Differential expression of wheat transcriptomes in response to varying cadmium concentrations

scientific article published in 2008

Dispersion quality of amine functionalized multiwall carbon nanotubes plays critical roles in polymerase chain reaction enhancement

scientific article

Dissecting miRNAs in Wheat D Genome Progenitor, Aegilops tauschii

scientific article published on 4 May 2016

Drought Stress

scholarly article published in 2011

Drought tolerance in modern and wild wheat

Dual-excitation upconverting nanoparticle and quantum dot aptasensor for multiplexed food pathogen detection

scientific article published on 4 March 2016

Durum wheat genome highlights past domestication signatures and future improvement targets

scientific article published on 08 April 2019

Employment of nanomaterials in polymerase chain reaction: insight into the impacts and putative operating mechanisms of nano-additives in PCR

scholarly article in RSC Advances, vol. 4 no. 69, 2014

Evaluation of seedling characteristics of wheat (Triticum aestivumL.) through canonical correlation analysis

Evolution of Buchloë dactyloides based on cloning and sequencing of matK, rbcL, and cob genes from plastid and mitochondrial genomes

scientific article published in June 2005

Exploring the interaction between small RNAs and R genes during Brachypodium response to Fusarium culmorum infection

scientific article

Expression and Cellular Localization of ZIP1 Transporter Under Zinc Deficiency in Wild Emmer Wheat

Extensive gene content variation in the Brachypodium distachyon pan-genome correlates with population structure.

scientific article published on 19 December 2017

Frequent gene movement and pseudogene evolution is common to the large and complex genomes of wheat, barley, and their relatives

scientific article published on 27 May 2011

From Genetics to Functional Genomics: Improvement in Drought Signaling and Tolerance in Wheat

scientific article

Functional features of a single chromosome arm in wheat (1AL) determined from its structure

scientific article

G4Boost: a machine learning-based tool for quadruplex identification and stability prediction

scientific article published on 01 January 2022

Genetic and Environmental Effects on Dough Mixing Characteristics and Agronomic Performance of Diverse Hard Red Winter Wheat Genotypes

article

Genetic gains for grain yield in high latitude spring wheat grown in Western Siberia in 1900–2008

article

Genetic variation and environmental stability of grain mineral nutrient concentrations in Triticum dicoccoides under five environments

Genome diversity in Brachypodium distachyon: deep sequencing of highly diverse inbred lines.

scientific article published on 15 July 2014

Genome sequence of the wheat stem sawfly, Cephus cinctus, a primitive hymenopteran and wheat pest, illuminates evolution of hymenopteran chemoreceptors

Genome sequence of the wheat stem sawfly, Cephus cinctus, representing an early-branching lineage of the Hymenoptera, illuminates evolution of hymenopteran chemoreceptors

scholarly article by Hugh M Robertson et al published 18 October 2018 in Genome Biology and Evolution

Genome sequencing and analysis of the model grass Brachypodium distachyon

scientific article

Genome-wide discovery of G-quadruplexes in barley

scientific article published on 12 April 2021

Genome-wide profiling and analysis of Festuca arundinacea miRNAs and transcriptomes in response to foliar glyphosate application

scientific article published on 6 March 2010

Genomics approaches for crop improvement against abiotic stress.

scientific article

Global Expression Patterns of Three Festuca Species Exposed to Different Doses of Glyphosate Using the Affymetrix GeneChip Wheat Genome Array

scientific article published on January 2009

Guidelines for the use and interpretation of assays for monitoring autophagy (3rd edition)

scientific article

Harnessing NGS and Big Data Optimally: Comparison of miRNA Prediction from Assembled versus Non-assembled Sequencing Data--The Case of the Grass Aegilops tauschii Complex Genome

scientific article

High-throughput SNP genotyping of modern and wild emmer wheat for yield and root morphology using a combined association and linkage analysis

scientific article published on 26 May 2017

History and current status of wheat miRNAs using next-generation sequencing and their roles in development and stress

scientific article

Hotspots in the genomic architecture of field drought responses in wheat as breeding targets.

scientific article published on 16 November 2018

Identifying, cloning and structural analysis of differentially expressed genes upon Puccinia infection of Festuca rubra var. rubra

scientific article published in May 2007

In Planta Evidence for the Involvement of a Ubiquitin Conjugating Enzyme (UBC E2 clade) in Negative Regulation of Disease Resistance

article

In silico search and biological validation of microRNAs related to drought response in peach and almond

scientific article published on 11 April 2016

Integrating genomic resources to present full gene and putative promoter capture probe sets for bread wheat

article

Intensive herbicide use has selected for constitutively elevated levels of stress-responsive mRNAs and proteins in multiple herbicide-resistant Avena fatua L.

scientific article

Interspecies and intergenus transferability of barley and wheat D-genome microsatellite markers

article published in 2010

LncMachine: a machine learning algorithm for long noncoding RNA annotation in plants

Looking back at the past and projecting ahead to the future

scientific article published in August 2015

Mapping QTLs conferring salt tolerance and micronutrient concentrations at seedling stagein wheat

scientific article published on 15 November 2017

Megabase level sequencing reveals contrasted organization and evolution patterns of the wheat gene and transposable element spaces

scientific article published on 25 June 2010

MicroRNA nomenclature and the need for a revised naming prescription

scientific article published on 06 July 2015

MicroRNAs in model and complex organisms

scientific article published on 20 February 2017

Microfabricated tools for quantitative plant biology.

scientific article published on 15 February 2017

Molecular characterization of Buffalograss germplasm using sequence-related amplified polymorphism markers

scientific article

Molecular characterization of cDNA encoding resistance gene-like sequences in Buchloe dactyloides

scientific article published on November 2006

Molecular organization and comparative analysis of chromosome 5B of the wild wheat ancestor Triticum dicoccoides

scientific article published on 18 June 2015

Molecular, morphological, and cytological analysis of diverse Brachypodium distachyon inbred lines.

scientific article

Molecular, serological and transmission electron microscopic analysis of the barley yellow dwarf virus-PAVand the cereal yellow dwarf virus-RPV in canary seed (Phalaris canariensisL.)

article

Multiple QTL-effects of wheat Gpc-B1 locus on grain protein and micronutrient concentrations

Multiple Variant Calling Pipelines in Wheat Whole Exome Sequencing

scientific article published in 2021

Multiple wheat genomes reveal global variation in modern breeding

scientific article published on 25 November 2020

NaB integrated graphene oxide membranes for enhanced cell viability and stem cell properties of human adipose stem cells

scholarly article in RSC Advances, vol. 6 no. 61, 2016

New wheat microRNA using whole-genome sequence

scientific article

Next-generation sequencing of flow-sorted wheat chromosome 5D reveals lineage-specific translocations and widespread gene duplications

scientific article published on 9 December 2014

Organellar genome analysis of rye (Secale cereale) representing diverse geographic regions

scientific article published on 01 August 2007

Phenotypic and genotypic variability for durable resistance to yellow rust (Puccinia striiformisf. sp.tritici) in Pakistan wheat cultivars

scholarly article by Naimat Ullah et al published 10 February 2014 in Archives of Phytopathology and Plant Protection

Physical mapping integrated with syntenic analysis to characterize the gene space of the long arm of wheat chromosome 1A.

scientific article

Plant Genetic Resources: Effective Utilization

article

Plant Small Non-coding RNAs and Their Roles in Biotic Stresses

scientific article published on 20 July 2018

Plant abiotic stress signaling

scientific article published on 18 September 2012

Plant miRNAs: biogenesis, organization and origins.

scientific article published on 26 June 2015

Plasmonic Selection of ssDNA Aptamers against Fibroblast Growth Factor Receptor

scientific article published on 02 July 2019

Proteome changes in wild and modern wheat leaves upon drought stress by two-dimensional electrophoresis and nanoLC-ESI-MS/MS.

scientific article

Quantitative trait loci conferring grain mineral nutrient concentrations in durum wheat x wild emmer wheat RIL population

scientific article published on 30 April 2009

RNA Sequencing and Co-expressed Long Non-coding RNA in Modern and Wild Wheats

scientific article published on 6 September 2017

Regulation of barley miRNAs upon dehydration stress correlated with target gene expression

scientific article published on 31 July 2010

Revealing constitutively expressed resistance genes in Agrostis species using PCR-based motif-directed RNA fingerprinting

article

Review of current methodological approaches for characterizing microRNAs in plants

scientific article published on 08 October 2009

Root precursors of microRNAs in wild emmer and modern wheats show major differences in response to drought stress

scientific article published on 15 July 2015

Sequencing chromosome 5D of Aegilops tauschii and comparison with its allopolyploid descendant bread wheat (Triticum aestivum).

scientific article published on 16 December 2014

Sequencing over 13 000 expressed sequence tags from six subtractive cDNA libraries of wild and modern wheats following slow drought stress

scientific article

Sorting the wheat from the chaff: identifying miRNAs in genomic survey sequences of Triticum aestivum chromosome 1AL.

scientific article

Stress responsive miRNAs and isomiRs in cereals

scientific article published on 20 February 2015

Subgenomic analysis of microRNAs in polyploid wheat

scientific article published on 17 May 2012

THROUGH THE LOOKING GLASS: Real-Time Imaging in Brachypodium Roots and Osmotic Stress Analysis

article

TMPIT1 from wild emmer wheat: first characterisation of a stress-inducible integral membrane protein

scientific article

Techniques to study autophagy in plants

scientific article published on 27 August 2009

The barley pan-genome reveals the hidden legacy of mutation breeding

scientific article published on 25 November 2020

The complete genome sequence of elite bread wheat cultivar, “Sonmez”

scientific article published in 2022

The drought response displayed by a DRE-binding protein from Triticum dicoccoides

scientific article published on 21 January 2011

The physical map of wheat chromosome 5DS revealed gene duplications and small rearrangements

scientific article published on 13 June 2015

The use of microsatellite markers for the detection of genetic similarity among winter bread wheat lines for chromosome 3A.

scientific article published on 29 July 2004

Through the Looking Glass: Real Time Imaging in Brachypodium Roots and Osmotic Stress Analysis

Transcriptome pathways unique to dehydration tolerant relatives of modern wheat

scientific article published on 28 March 2009

Transferability and polymorphism of barley EST-SSR markers used for phylogenetic analysis in Hordeum chilense

scientific article

Trends in aptamer selection methods and applications

scientific article published on July 2015

Turfgrass species response exposed to increasing rates of glyphosate application

Understanding ploidy complex and geographic origin of the Buchloe dactyloides genome using cytoplasmic and nuclear marker systems

scientific article published on 10 November 2005

Unique and conserved microRNAs in wheat chromosome 5D revealed by next-generation sequencing

scientific article

Virus-induced gene silencing, a post transcriptional gene silencing method

scientific article

Wet laboratory tools widely used in plant genomics

scientific article

Wheat miRNA ancestors: evident by transcriptome analysis of A, B, and D genome donors

scientific article published on 31 March 2016

Wheat syntenome unveils new evidences of contrasted evolutionary plasticity between paleo- and neoduplicated subgenomes.

scientific article published on 29 November 2013

Wild emmer genome architecture and diversity elucidate wheat evolution and domestication.

scientific article

Zn-Deficiency Responsive Transcripts in Agrostis Species Revealed by mRNA Differential Display

miRNA expression patterns of Triticum dicoccoides in response to shock drought stress

scientific article

mirMachine: A One-Stop Shop for Plant miRNA Annotation

Paulina is supported by:

About Paulina

Help