Abstract:
:Gene order is largely collinear in the small-grained cereals, a feature which has proved helpful in both marker development and positional cloning. The accuracy of a virtual gene order map ("genome zipper") for barley (Hordeum vulgare), developed by combining a genetic map of this species with a large number of gene locations obtained from the maps constructed in other grass species, was evaluated here both at the genome-wide level and at the fine scale in a representative segment of the genome. Comparing the whole genome "genome zipper" maps with a genetic map developed by using transcript-derived markers, yielded an accuracy of >94 %. The fine-scale comparison involved a 14 cM segment of chromosome arm 2HL. One hundred twenty-eight genes of the "genome zipper" interval were analysed. Over 95 % (45/47) of the polymorphic markers were genetically mapped and allocated to the expected region of 2HL, following the predicted order. A further 80 of the 128 genes were assigned to the correct chromosome arm 2HL by analysis of wheat-barley addition lines. All 128 gene-based markers developed were used to probe a barley bacterial artificial chromosome (BAC) library, delivering 26 BAC contigs from which all except two were anchored to the targeted zipper interval. The results demonstrate that the gene order predicted by the "genome zipper" is remarkably accurate and that the "genome zipper" represents a highly efficient informational resource for the systematic identification of gene-based markers and subsequent physical map anchoring of the barley genome.
journal_name
Funct Integr Genomicsjournal_title
Functional & integrative genomicsauthors
Poursarebani N,Ariyadasa R,Zhou R,Schulte D,Steuernagel B,Martis MM,Graner A,Schweizer P,Scholz U,Mayer K,Stein Ndoi
10.1007/s10142-013-0327-2subject
Has Abstractpub_date
2013-08-01 00:00:00pages
339-50issue
3eissn
1438-793Xissn
1438-7948journal_volume
13pub_type
杂志文章abstract::Aldo/keto reductases (AKRs) constitute a multitasking protein family that catalyzes diverse metabolic transformations including detoxification of stress generated reactive aldehydes. Yet this important protein family is poorly understood particularly in cyanobacteria, the ecologically most diverse and significant grou...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-017-0547-y
更新日期:2017-07-01 00:00:00
abstract::The oomycete pathogen Plasmopara viticola (Berk. et Curt.) Berl. et de Toni is the causing agent of the destructive downy mildew disease in grapevine. Despite the advances towards elucidation of grapevine resistance mechanisms to downy mildew, increased knowledge of the biological and genetic components of the pathosy...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-012-0261-8
更新日期:2012-06-01 00:00:00
abstract::Cotton (Gossypium spp.) is an imperative economic crop of the globe due to its natural textile fiber. Molecular mechanisms of fiber development have been greatly revealed in allotetraploid cotton but remained unexplored in Gossypium herbaceum. G. herbaceum can withstand the rigors of nature like drought and pests but ...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-017-0586-4
更新日期:2018-03-01 00:00:00
abstract::Comparative genomic analysis is the cornerstone of in silico-based approaches to understanding biological systems and processes across cereal species, such as rice, wheat and barley, in order to identify genes of agronomic interest. The size of the genomic repositories is nearly doubling every year, and this has signi...
journal_title:Functional & integrative genomics
pub_type: 杂志文章,评审
doi:10.1007/s10142-004-0102-5
更新日期:2004-03-01 00:00:00
abstract::We have previously reported that the deletion of BMAL1 gene has opposite effects in respect to its contribution to the pathways that are effective in the multistage carcinogenesis process. BMAL1 deletion sensitized nearly normal breast epithelial (MCF10A) and invasive breast cancer cells (MDA-MB-231) to cisplatin- and...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-020-00757-6
更新日期:2021-01-01 00:00:00
abstract::Jatropha curcas is a new promising bioenergy crop due to the high oil content in its seeds that can be converted into biodiesel. Seed size, a major determinant of Jatropha oil yield, is a target trait for Jatropha breeding. Due to the vital roles of phytohormone auxin in controlling seed and fruit development, we scre...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-014-0400-5
更新日期:2014-12-01 00:00:00
abstract::MicroRNAs (miRNAs) are small RNAs (sRNAs) that regulate gene expression in development and adaptive responses to the environment. The early days in the sRNA field was one of the most exciting and promising moments in modern biology, attracting large investments to the understanding of the underlining mechanisms and th...
journal_title:Functional & integrative genomics
pub_type: 杂志文章,评审
doi:10.1007/s10142-016-0513-0
更新日期:2017-05-01 00:00:00
abstract::Control of proteolysis is important for plant growth, development, responses to stress, and defence against insects and pathogens. Members of the serpin protein family are likely to play a critical role in this control through irreversible inhibition of endogenous and exogenous target proteinases. Serpins have been fo...
journal_title:Functional & integrative genomics
pub_type: 杂志文章,评审
doi:10.1007/s10142-007-0059-2
更新日期:2008-02-01 00:00:00
abstract::MicroRNAs (miRNAs) play a pivotal role in post-transcriptional regulation of gene expression in plants. In this study, we investigate miRNAs in an agronomically important common tobacco in China, named Honghua Dajinyuan (a drought-tolerant cultivar). Here, we report a comprehensive analysis of miRNA expression profile...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-014-0365-4
更新日期:2014-06-01 00:00:00
abstract::Carefully analyzed expression profiles can serve as a valuable reference for deciphering gene functions. We exploited the potential of whole genome microarrays to measure the spatial and temporal expression profiles of rice genes in 19 stages of vegetative and reproductive development. We could verify expression of 22...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-012-0274-3
更新日期:2012-06-01 00:00:00
abstract::MicroRNAs, small regulatory molecules with significant impacts on the transcriptional network of all living organisms, have been the focus of several studies conducted mostly on modern wheat cultivars. In this study, we investigated miRNA repertoires of modern durum wheat and its wild relatives, with differing degrees...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-015-0453-0
更新日期:2015-09-01 00:00:00
abstract::In grapes (Vitis vinifera L.), exogenous gibberellic acid (GA3) is applied at different stages of bunch development to achieve desirable bunch shape and berry size in seedless grapes used for table purpose. RNA sequence-based transcriptome analysis was used to understand the mechanism of GA3 action at cluster emergenc...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-018-0605-0
更新日期:2018-07-01 00:00:00
abstract::The IbeA (ibe10) gene is an invasion determinant contributing to E. coli K1 invasion of the blood-brain barrier. This gene has been cloned and characterized from the chromosome of an invasive cerebrospinal fluid isolate of E. coli K1, strain RS218 (018:K1: H7). In the present study, a genetic island of meningitic E. c...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s101420100039
更新日期:2001-09-01 00:00:00
abstract::Nuclear genomes of human, animals, and plants are organized into subunits called chromosomes. When isolated into aqueous suspension, mitotic chromosomes can be classified using flow cytometry according to light scatter and fluorescence parameters. Chromosomes of interest can be purified by flow sorting if they can be ...
journal_title:Functional & integrative genomics
pub_type: 杂志文章,评审
doi:10.1007/s10142-012-0293-0
更新日期:2012-08-01 00:00:00
abstract::The aim of this study was to examine the effect of abscisic acid (ABA), sucrose, and auxin on grape fruit development and to assess the mechanism of these three factors on the grape fruit ripening process. Different concentrations of ABA, sucrose, and auxin were used to treat the grape fruit, and the ripening-related ...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-017-0546-z
更新日期:2017-07-01 00:00:00
abstract::As the amino acid storing organelle, the protein bodies provide nutrients for embryo development, seed germination and early seedling growth through storage proteolysis in cereal plants, such as wheat and rice. In protein bodies, the monomeric and polymeric prolamins, i.e. gliadins and glutenins, form gluten and play ...
journal_title:Functional & integrative genomics
pub_type: 杂志文章,评审
doi:10.1007/s10142-010-0196-x
更新日期:2011-03-01 00:00:00
abstract::GRAS domain genes are a group of important plant-specific transcription factors that have been reported to be involved in plant development. In order to know the roles of GRAS genes in grapevine, a widely cultivated fruit crop, the study on grapevine GRAS (VvGRAS) was carried out, and from which, 43 were identified fr...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-016-0479-y
更新日期:2016-07-01 00:00:00
abstract::GDSL-type esterase/lipase (GELP) is mainly characterized by a conserved GDSL domain at N terminus, and is widely found in all living species, both prokaryotes and eukaryotes. GELP gene family consists of a wide range of members playing important roles in plant physiological processes, such as development, stress respo...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-018-0620-1
更新日期:2018-11-01 00:00:00
abstract::The root-knot nematode Meloidogyne incognita is among the most damaging plant-parasitic pests of several crops including cotton (Gossypium hirsutum) and tomato (Lycopersicon escultentum). Recently, a genome has become available for M. incognita, which greatly facilitates investigation of the interactions between M. in...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-015-0472-x
更新日期:2016-03-01 00:00:00
abstract::Stem blister canker, caused by Botryosphaeria dothidea, is becoming the most serious disease of poplar in China. The molecular basis of the poplar in response to stem blister canker is not well understood. To reveal the global transcriptional changes of poplar to infection by B. dothidea, Solexa paired-end sequencing ...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-014-0379-y
更新日期:2014-09-01 00:00:00
abstract::Barley (Hordeum vulgare L.) is one of the most important large-genome cereals with extensive genetic resources available in the public sector. Studies of genome organization in barley have been limited primarily to genetic markers and sparse sequence data. Here we report sequence analysis of 417.5 kb DNA from four BAC...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-002-0055-5
更新日期:2002-05-01 00:00:00
abstract::The photosynthetic organs of the barley spike (lemma, palea, and awn) are considered resistant to drought. However, there is little information about gene expression in the spike organs under drought conditions. We compared response of the transcriptome of the lemma, palea, awn, and seed to drought stress using the Ba...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-009-0149-4
更新日期:2010-05-01 00:00:00
abstract::Culex pipiens mosquitoes are important disease vectors inhabiting temperate zones, worldwide. The seasonal reduction in temperature and photoperiod accompanying late summer and early fall prompts female mosquitoes to enter diapause, a stage of developmental arrest and physiological conditioning that enhances survival ...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-015-0432-5
更新日期:2015-07-01 00:00:00
abstract::The expression of many genes encoding transcriptional activators in prokaryotes and eukaryotes is upregulated through positive feedback activation. During positive feedback activation, a transcriptional activator binds to its own promoter and thus increases its own expression as well as the expression of its target ge...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s101420000001
更新日期:2000-05-01 00:00:00
abstract::Bread wheat (Triticum aestivum L.) is one of the most important crops globally and a high priority for genetic improvement, but its large and complex genome has been seen as intractable to whole genome sequencing. Isolation of individual wheat chromosome arms has facilitated large-scale sequence analyses. However, so ...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-011-0250-3
更新日期:2012-03-01 00:00:00
abstract::Advances in our understanding of genome structure provide consistent evidence for the existence of a core genome representing species classically defined by phenotype, as well as conditionally dispensable components of the genome that shows extensive variation between individuals of a given species. Generally, conserv...
journal_title:Functional & integrative genomics
pub_type: 杂志文章,评审
doi:10.1007/s10142-013-0319-2
更新日期:2013-03-01 00:00:00
abstract::Auxin response factors (ARFs) are recently discovered transcription factors that bind with auxin response elements (AuxRE, TGTCTC) to regulate the expression of early auxin-responsive genes. To our knowledge, the ARF gene family has never been characterized in cotton, the most important fiber crop in the world. In thi...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-015-0437-0
更新日期:2015-07-01 00:00:00
abstract::In theory, gene therapy is a simple concept which holds great promise as a cure for disease. In practice, however, considerable obstacles have to be overcome, including problems with safe and efficient gene delivery and stable gene expression. This review gives an overview on the history of gene therapy and analyses s...
journal_title:Functional & integrative genomics
pub_type: 杂志文章,评审
doi:10.1007/s101420000011
更新日期:2000-09-01 00:00:00
abstract::The whole genome expression pattern of Arabidopsis in response to the auxinic herbicide 2,4-dichlorophenoxyacetic acid (2,4-D) was evaluated using the Affymetrix ATH1-121501 array. Arabidopsis plants were grown in vitro and were exposed to 1 mM 2,4-D for 1 h, after which time gene transcription levels were measured. I...
journal_title:Functional & integrative genomics
pub_type: 杂志文章
doi:10.1007/s10142-004-0119-9
更新日期:2005-01-01 00:00:00
abstract::The ever-rising population of the twenty-first century together with the prevailing challenges, such as deteriorating quality of arable land and water, has placed a big challenge for plant breeders to satisfy human needs for food under erratic weather patterns. Rice, wheat, and maize are the major staple crops consume...
journal_title:Functional & integrative genomics
pub_type: 杂志文章,评审
doi:10.1007/s10142-019-00684-1
更新日期:2019-09-01 00:00:00