Insights into the early stage of Pinus nigra Arn. somatic embryogenesis using discovery proteomics.

Abstract:

:The somatic embryogenesis in conifers represents a suitable model of plant regeneration system facilitating studies of fundamental aspects of an early development as well as in vitro micropropagation. The aim of our study was to deeper understand the somatic embryogenesis in the conifer tree Pinus nigra Arn. Comparative proteomic analysis based on 2D-PAGE in 1) proliferating embryogenic tissues (E) initiated from immature zygotic embryos, 2) non-embryogenic calli (NEC) initiated from cotyledons of somatic seedlings of the same genotypes, 3) embryogenic tissues that lost the maturation capacity (E-L) of two cell lines (E362, E366). Investigated pine tissues showed distinct structural features. The 24 protein spots were altered in both cell lines in comparison of embryogenic and non-embryogenic tissues. These proteins are involved in disease and defence mechanism, energy metabolism and biosynthesis of cell wall components. Two of three protein spots detected only in embryogenic form of both cell lines are similar to water deficit inducible protein LP3, the third remains uncharacterised. The loss of the maturation capacity was accompanied by changes in 35 and 38 protein spots in 362 and 366 cell lines, respectively. Only two of them were altered in both cell lines, suggesting non-uniform process of ageing. BIOLOGICAL SIGNIFICANCE:Somatic embryogenesis in conifers represents an experimental system for the study of early plant development as well as a biotechnological tool for large-scale micropropagation. The obtained results give a new insight into the process of somatic embryogenesis of a conifer Pinus nigra Arn. by revealing differences at proteomic levels among in vitro cultured tissues characterised by different embryogenic potential. Microscopic investigations have also shown differences in the structural organisation of studied tissues.

journal_name

J Proteomics

journal_title

Journal of proteomics

authors

Klubicová K,Uvácková L,Danchenko M,Nemecek P,Skultéty L,Salaj J,Salaj T

doi

10.1016/j.jprot.2017.05.013

subject

Has Abstract

pub_date

2017-10-03 00:00:00

pages

99-111

eissn

1874-3919

issn

1876-7737

pii

S1874-3919(17)30180-X

journal_volume

169

pub_type

杂志文章
  • An in-depth snake venom proteopeptidome characterization: Benchmarking Bothrops jararaca.

    abstract::A large-scale proteomic approach was devised to advance the understanding of venom composition. Bothrops jararaca venom was fractionated by OFFGEL followed by chromatography, generating peptidic and proteic fractions. The latter was submitted to trypsin digestion. Both fractions were separately analyzed by reversed-ph...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2016.06.029

    authors: Nicolau CA,Carvalho PC,Junqueira-de-Azevedo IL,Teixeira-Ferreira A,Junqueira M,Perales J,Neves-Ferreira AG,Valente RH

    更新日期:2017-01-16 00:00:00

  • Global identification of transfer RNAs by liquid chromatography-mass spectrometry (LC-MS).

    abstract::Transfer ribonucleic acid (tRNA) is the non-coding RNA that links the processes of gene transcription with protein translation. While tRNAs have, individually, been studied for many years, few approaches exist for the global identification of tRNAs at the RNA and posttranscriptional RNA levels. Previously our lab intr...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2011.09.015

    authors: Wetzel C,Limbach PA

    更新日期:2012-06-27 00:00:00

  • Comparative proteomic analysis of two transgenic low-gliadin wheat lines and non-transgenic wheat control.

    abstract::Gluten proteins are major determinants of the bread making quality of wheat, but also of important wheat-related disorders, including coeliac disease (CD), and allergies. We carried out a proteomic study using the total grain proteins from two low-gliadin wheat lines, obtained by RNAi, and the untransformed wild type ...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2017.06.010

    authors: García-Molina MD,Muccilli V,Saletti R,Foti S,Masci S,Barro F

    更新日期:2017-08-08 00:00:00

  • Proteomic changes in Arthrobotrys oligospora conidia in response to benzaldehyde-induced fungistatic stress.

    abstract::Soil fungistasis limits the effect of fungal agents designed to control plant-parasitic nematodes. Benzaldehyde is a fungistatic factor produced by soil microorganisms that can suppress conidial germination, but the molecular mechanism of this suppression is unknown. In this study, three conidial proteomes of Arthrobo...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2018.09.016

    authors: Liu T,Zou LJ,Tian DW,Can QY,Zhu ML,Mo MH,Zhang KQ

    更新日期:2019-02-10 00:00:00

  • Characterization of protective extracellular membrane-derived vesicles produced by Streptococcus pneumoniae.

    abstract:UNLABELLED:Extracellular vesicles are produced by many pathogenic microorganisms and have varied functions that include secretion and release of microbial factors, which contribute to virulence. Very little is known about vesicle production by Gram-positive bacteria, as well as their biogenesis and release mechanisms. ...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2014.04.023

    authors: Olaya-Abril A,Prados-Rosales R,McConnell MJ,Martín-Peña R,González-Reyes JA,Jiménez-Munguía I,Gómez-Gascón L,Fernández J,Luque-García JL,García-Lidón C,Estévez H,Pachón J,Obando I,Casadevall A,Pirofski LA,Rodríguez-Ortega M

    更新日期:2014-06-25 00:00:00

  • An MRM-based workflow for quantifying cardiac mitochondrial protein phosphorylation in murine and human tissue.

    abstract::The regulation of mitochondrial function is essential for cardiomyocyte adaptation to cellular stress. While it has long been understood that phosphorylation regulates flux through metabolic pathways, novel phosphorylation sites are continually being discovered in all functionally distinct areas of the mitochondrial p...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2012.02.014

    authors: Lam MP,Scruggs SB,Kim TY,Zong C,Lau E,Wang D,Ryan CM,Faull KF,Ping P

    更新日期:2012-08-03 00:00:00

  • A proteomics approach to identify proteins differentially expressed in Douglas-fir seedlings infected by Phellinus sulphurascens.

    abstract::We carried out a comparative proteomic study to explore the molecular mechanisms that underlie the defense response of Douglas-fir (DF, Pseudotsuga menziesii) to laminated root rot, a disease caused by Phellinus sulphurascens. 2-DE was conducted on proteins extracted from roots of laboratory-grown, young DF seedlings ...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2008.06.004

    authors: Islam MA,Sturrock RN,Ekramoddoullah AK

    更新日期:2008-10-07 00:00:00

  • Clinical use of phosphorylated proteins in blood serum analysed by immobilised metal ion affinity chromatography and mass spectrometry.

    abstract::The process of protein phosphorylation in cells is well studied in the context of a wide range of biologic functions such as signalling, cell cycle, cell growth and differentiation, and others. In contrast, little progress has been made in the investigation of protein phosphorylation specifically in blood. Here, we fo...

    journal_title:Journal of proteomics

    pub_type: 临床试验,杂志文章,多中心研究

    doi:10.1016/j.jprot.2012.02.015

    authors: Jaros JA,Guest PC,Ramoune H,Rothermundt M,Leweke FM,Martins-de-Souza D,Bahn S

    更新日期:2012-12-05 00:00:00

  • The variations in the nuclear proteome reveal new transcription factors and mechanisms involved in UV stress response in Pinus radiata.

    abstract:UNLABELLED:The importance of UV stress and its side-effects over the loss of plant productivity in forest species demands a deeper understanding of how pine trees respond to UV irradiation. Although the response to UV stress has been characterized at system and cellular levels, the dynamics within the nuclear proteome ...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2016.03.003

    authors: Pascual J,Alegre S,Nagler M,Escandón M,Annacondia ML,Weckwerth W,Valledor L,Cañal MJ

    更新日期:2016-06-30 00:00:00

  • Quantitative profiling of the rat heart myoblast secretome reveals differential responses to hypoxia and re-oxygenation stress.

    abstract:UNLABELLED:Secretion of bioactive mediators regulates cell interactions with the microenvironment in tissue homeostasis and wound healing processes. We assessed the cardiomyocyte secretory response to hypoxia with the aim of identifying key mediators of tissue pathology and repair after ischemic heart attack. We profil...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2013.12.025

    authors: Li X,Ren Y,Sorokin V,Poh KK,Ho HH,Lee CN,de Kleijn D,Lim SK,Tam JP,Sze SK

    更新日期:2014-02-26 00:00:00

  • Comparative evaluation of electrostatic repulsion-hydrophilic interaction chromatography (ERLIC) and high-pH reversed phase (Hp-RP) chromatography in profiling of rat kidney proteome.

    abstract:UNLABELLED:ERLIC and high-pH RP (Hp-RP) have been reported to be promising alternatives to strong cation exchange (SCX) in proteome fractionation. Here we compared the performance of ERLIC, concatenated ERLIC and concatenated Hp-RP in proteome profiling. The protein identification is comparable in these three strategie...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2013.02.008

    authors: Hao P,Ren Y,Dutta B,Sze SK

    更新日期:2013-04-26 00:00:00

  • Proteomic analysis of healthy and atretic porcine follicular granulosa cells.

    abstract::Follicular atresia is initiated with the apoptosis of granulosa cells (GCs) after birth in mammals. The molecular mechanisms underlying GC apoptosis during follicular selection are unclear at present. The objective of this study is to identify the proteins and pathways that may be involved in porcine follicular atresi...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2020.104027

    authors: Shan X,Yu T,Yan X,Wu J,Fan Y,Guan X,Fang F,Lin Y,Zhang Y,Li Y,Liu Y

    更新日期:2021-02-10 00:00:00

  • Charting the cellular and extracellular proteome analysis of Brevibacterium linens DSM 20158 with unsequenced genome by mass spectrometry-driven sequence similarity searches.

    abstract:UNLABELLED:Brevibacterium linens DSM 20158 is an industrially important actinobacterium which is well-known for the production of amino acids and enzymes. However, as this strain has an unsequenced genome, there is no detailed information regarding its proteome although another strain of this microbe, BL2, has a shotgu...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2013.02.029

    authors: Shabbiri K,Botting CH,Adnan A,Fuszard M

    更新日期:2013-05-27 00:00:00

  • An in vivo characterization of colostrum protein uptake in porcine gut during early lactation.

    abstract::Understanding the bioactive roles of colostrum proteins has gained much attention, and in particular, their potential use in human and veterinary medicine has been extensively studied. However, studies of bioactivity have mainly been conducted in vitro, but it has not yet been well characterized at the individual prot...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2010.08.011

    authors: Danielsen M,Pedersen LJ,Bendixen E

    更新日期:2011-01-01 00:00:00

  • iTRAQ-based quantitative proteomic analysis reveals the role of the tonoplast in fruit senescence.

    abstract:UNLABELLED:The vacuole is by far the largest multifunctional organelle in fruits and plays a functional role in fruit development and fruit quality. Despite its significance, little information exists pertaining to the role of the vacuolar membrane (tonoplast) in the process of fruit senescence. In the present study, a...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2016.06.031

    authors: Liu R,Wang Y,Qin G,Tian S

    更新日期:2016-09-02 00:00:00

  • A proteomic analysis of p53-independent induction of apoptosis by bortezomib in 4T1 breast cancer cell line.

    abstract:UNLABELLED:The 26S proteasome is a proteolytic enzyme found in both cytoplasm and nucleus. In this study, we examined the differential expression of proteasome inhibitor bortezomib-induced proteins in p53-deficient 4T1 cells. It was found that GRP78 and TCEB2 were over-expressed in response to treatment with bortezomib...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2014.09.010

    authors: Yerlikaya A,Okur E,Baykal AT,Acılan C,Boyacı I,Ulukaya E

    更新日期:2015-01-15 00:00:00

  • Targeted quantitative proteomic investigation employing multiple reaction monitoring on quantitative changes in proteins that regulate volatile biosynthesis of strawberry fruit at different ripening stages.

    abstract::A targeted quantitative proteomic investigation employing the multiple reaction monitoring (MRM, SRM) technique was conducted on strawberry fruit at different development stages. We investigated 22 proteins and isoforms from 32 peptides with 111 peptide transitions, which may be involved in the volatile aroma biosynth...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2015.06.004

    authors: Song J,Du L,Li L,Palmer LC,Forney CF,Fillmore S,Zhang Z,Li X

    更新日期:2015-08-03 00:00:00

  • Molecular diversity of Chaerilidae venom peptides reveals the dynamic evolution of scorpion venom components from Buthidae to non-Buthidae.

    abstract:UNLABELLED:The scorpion family Chaerilidae is phylogenetically differentiated from Buthidae. Their venom components are not known, and the evolution of the venom components is not well understood. Here, we performed a transcriptome analysis of the venom glands from two scorpion species, Chaerilus tricostatus and Chaeri...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2013.06.007

    authors: He Y,Zhao R,Di Z,Li Z,Xu X,Hong W,Wu Y,Zhao H,Li W,Cao Z

    更新日期:2013-08-26 00:00:00

  • Glycoproteome in silkworm Bombyx mori and alteration by BmCPV infection.

    abstract::The biological functions of protein glycosylation have been increasingly recognized but not yet been very well understood, especially in lower organisms. Silkworm as a model lepidopteran insect and important economic insect, has been widely studied in life science, however, the current knowledge on the glycosylation s...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2020.103802

    authors: Zhu F,Li D,Song D,Huo S,Ma S,Lü P,Liu X,Yao Q,Chen K

    更新日期:2020-06-30 00:00:00

  • Towards muscle-specific meat color stability of Chinese Luxi yellow cattle: A proteomic insight into post-mortem storage.

    abstract::Searching for potential predictors of meat color is a challenging task for the meat industry. In this study, the relationship between meat color parameters and the sarcoplasmic proteome of M. longissimuss lumborum (LL) and M. psoas major (PM) from Chinese Luxi yellow cattle during post-mortem storage (0, 5, 10 and 15d...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2015.10.027

    authors: Wu W,Yu QQ,Fu Y,Tian XJ,Jia F,Li XM,Dai RT

    更新日期:2016-09-16 00:00:00

  • Comparative proteome analyses of host protein expression in response to Enterovirus 71 and Coxsackievirus A16 infections.

    abstract::Enterovirus 71 (EV71) and Coxsackievirus A16 (CA16) are the main etiological agents of Hand, Foot and Mouth Disease (HFMD), a common disease among children and had caused several outbreaks in the Asia-Pacific region. Although being genetically close to each other, EV71 infection can cause serious and fatal neurologica...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2011.05.022

    authors: Lee JJ,Seah JB,Chow VT,Poh CL,Tan EL

    更新日期:2011-09-06 00:00:00

  • Intrinsic disorder and multiple phosphorylations constrain the evolution of the flightin N-terminal region.

    abstract::Flightin is a myosin binding phosphoprotein that originated in the ancestor to Pancrustacea ~500 MYA. In Drosophila melanogaster, flightin is essential for length determination and flexural rigidity of thick filaments. Here, we show that among 12 Drosophila species, the N-terminal region is characterized by low sequen...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2015.12.006

    authors: Lemas D,Lekkas P,Ballif BA,Vigoreaux JO

    更新日期:2016-03-01 00:00:00

  • Two-dimensional gel electrophoresis of wool intermediate filament proteins.

    abstract::Two-dimensional polyacrylamide gel electrophoresis (2D-PAGE) methods have been used to provide high-resolution separation of wool intermediate filament proteins (IFPs). An improved method of extraction was developed based on a previously published method. The improved method for extraction eliminates the use of dialys...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2008.06.008

    authors: Paton LN,Gerrard JA,Bryson WG

    更新日期:2008-10-07 00:00:00

  • From brain to blood: New biomarkers for ischemic stroke prognosis.

    abstract:UNLABELLED:Despite being ischemic stroke a leading cause of death and functional disability, there are no other accurate tools to predict outcome of patients beyond clinical variables such as age and stroke severity. In this scenario, defining protein changes associated with acute ischemic brain damage might help to id...

    journal_title:Journal of proteomics

    pub_type: 临床试验,杂志文章

    doi:10.1016/j.jprot.2013.09.005

    authors: García-Berrocoso T,Penalba A,Boada C,Giralt D,Cuadrado E,Colomé N,Dayon L,Canals F,Sanchez JC,Rosell A,Montaner J

    更新日期:2013-12-06 00:00:00

  • 'Omics' techniques for identifying flooding-response mechanisms in soybean.

    abstract::Plant growth and productivity are adversely influenced by various environmental stresses, which often lead to reduced seedling growth and decreased crop yields. Plants respond to stressful conditions through changes in 'omics' profiles, including transcriptomics, proteomics, and metabolomics. Linking plant phenotype t...

    journal_title:Journal of proteomics

    pub_type: 杂志文章,评审

    doi:10.1016/j.jprot.2012.12.016

    authors: Komatsu S,Shirasaka N,Sakata K

    更新日期:2013-11-20 00:00:00

  • Love me tender: an Omics window on the bovine meat tenderness network.

    abstract::Meat tenderness prediction is a challenging task, especially in Maremmana, an Italian autochtonous and highly appreciated beef breed. In the present study we reported an integrated proteomics, phosphoproteomics and metabolomics overview of meat tenderness in longissimus dorsi from 15 male Maremmana individuals, throug...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2012.02.013

    authors: D'Alessandro A,Rinalducci S,Marrocco C,Zolla V,Napolitano F,Zolla L

    更新日期:2012-07-19 00:00:00

  • How many spots with missing values can be tolerated in quantitative two-dimensional gel electrophoresis when applying univariate statistics?

    abstract::Quantitative proteomic comparisons require a sufficient number of samples to reach an acceptable level of significance. But 2D gel electrophoresis commonly results in incomplete data sets due to spots with missing values reducing thereby the number of parallel measurements for individual proteins. Here we investigated...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2011.12.019

    authors: Zellner M,Graf A,Zehetmayer S,Winkler W,Staes A,Gevaert K,Vandekerckhove J,Marchetti-Deschmann M,Miller I,Bauer P,Allmaier G,Oehler R

    更新日期:2012-03-16 00:00:00

  • Proteomic analysis of the abomasal mucosal response following infection by the nematode, Haemonchus contortus, in genetically resistant and susceptible sheep.

    abstract::Sheep have a variable ability to resist gastrointestinal nematode infection, but the key factors mediating this response are poorly defined. Here we report the first large-scale application of quantitative proteomic technologies to define proteins that are differentially abundant between sheep selectively bred to have...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2012.01.016

    authors: Nagaraj SH,Harsha HC,Reverter A,Colgrave ML,Sharma R,Andronicos N,Hunt P,Menzies M,Lees MS,Sekhar NR,Pandey A,Ingham A

    更新日期:2012-04-03 00:00:00

  • Intraspecies variation in the venom of the rattlesnake Crotalus simus from Mexico: different expression of crotoxin results in highly variable toxicity in the venoms of three subspecies.

    abstract:UNLABELLED:The composition and toxicological profile of the venom of the rattlesnake Crotalus simus in Mexico was analyzed at the subspecies and individual levels. Venoms of the subspecies C. s. simus, C. s. culminatus and C. s. tzabcan greatly differ in the expression of the heterodimeric neurotoxin complex 'crotoxin'...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2013.05.024

    authors: Castro EN,Lomonte B,del Carmen Gutiérrez M,Alagón A,Gutiérrez JM

    更新日期:2013-07-11 00:00:00

  • Impact of HDL oxidation by the myeloperoxidase system on sterol efflux by the ABCA1 pathway.

    abstract::Protein oxidation by phagocytic white blood cells is implicated in tissue injury during inflammation. One important target might be high-density lipoprotein (HDL), which protects against atherosclerosis by removing excess cholesterol from artery wall macrophages. In the human artery wall, cholesterol-laden macrophages...

    journal_title:Journal of proteomics

    pub_type: 杂志文章

    doi:10.1016/j.jprot.2011.04.001

    authors: Shao B,Heinecke JW

    更新日期:2011-10-19 00:00:00