Ultrafiltration combined with size exclusion chromatography efficiently isolates extracellular vesicles from cell culture media for compositional and functional studies.

Abstract:

:Appropriate isolation methods are essential for unravelling the relative contribution of extracellular vesicles (EVs) and the EV-free secretome to homeostasis and disease. We hypothesized that ultrafiltration followed by size exclusion chromatography (UF-SEC) provides well-matched concentrates of EVs and free secreted molecules for proteomic and functional studies. Conditioned media of BEAS-2B bronchial epithelial cells were concentrated on 10 kDa centrifuge filters, followed by separation of EVs and free protein using sepharose CL-4B SEC. Alternatively, EVs were isolated by ultracentrifugation. EV recovery was estimated by bead-coupled flow cytometry and tuneable resistive pulse sensing. The proteomic composition of EV isolates and SEC protein fractions was characterized by nano LC-MS/MS. UF-SEC EVs tended to have a higher yield and EV-to-protein rate of purity than ultracentrifugation EVs. UF-SEC EVs and ultracentrifugation EVs showed similar fold-enrichments for biological pathways that were distinct from those of UF-SEC protein. Treatment of BEAS-2B cells with UF-SEC protein, but not with either type of EV isolate increased the IL-8 concentration in the media whereas EVs, but not protein induced monocyte adhesion to endothelial cells. Thus, UF-SEC is a useful alternative for ultracentrifugation and allows comparing the proteomic composition and functional effects of EVs and free secreted molecules.

journal_name

Sci Rep

journal_title

Scientific reports

authors

Benedikter BJ,Bouwman FG,Vajen T,Heinzmann ACA,Grauls G,Mariman EC,Wouters EFM,Savelkoul PH,Lopez-Iglesias C,Koenen RR,Rohde GGU,Stassen FRM

doi

10.1038/s41598-017-15717-7

subject

Has Abstract

pub_date

2017-11-10 00:00:00

pages

15297

issue

1

issn

2045-2322

pii

10.1038/s41598-017-15717-7

journal_volume

7

pub_type

杂志文章
  • Author Correction: How visual experience impacts the internal and external spatial mapping of sensorimotor functions.

    abstract::A correction has been published and is appended to both the HTML and PDF versions of this paper. The error has been fixed in the paper. ...

    journal_title:Scientific reports

    pub_type: 杂志文章,已发布勘误

    doi:10.1038/s41598-017-16992-0

    authors: Crollen V,Albouy G,Lepore F,Collignon O

    更新日期:2017-12-04 00:00:00

  • Performance of Deep Learning Architectures and Transfer Learning for Detecting Glaucomatous Optic Neuropathy in Fundus Photographs.

    abstract::The ability of deep learning architectures to identify glaucomatous optic neuropathy (GON) in fundus photographs was evaluated. A large database of fundus photographs (n = 14,822) from a racially and ethnically diverse group of individuals (over 33% of African descent) was evaluated by expert reviewers and classified ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-35044-9

    authors: Christopher M,Belghith A,Bowd C,Proudfoot JA,Goldbaum MH,Weinreb RN,Girkin CA,Liebmann JM,Zangwill LM

    更新日期:2018-11-12 00:00:00

  • Detection of DNA Amplicons of Polymerase Chain Reaction Using Litmus Test.

    abstract::We report on a new colorimetric DNA detection method that takes advantage of the power of polymerase chain reaction (PCR) and the simplicity of the classic litmus test. The strategy makes use of a modified set of primers for PCR to facilitate ensuing manipulations of resultant DNA amplicons: their tagging with urease ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-017-03009-z

    authors: Chang D,Tram K,Li B,Feng Q,Shen Z,Lee CH,Salena BJ,Li Y

    更新日期:2017-06-08 00:00:00

  • Publisher Correction: Liver sinusoidal endothelial cells (LSECs) modifications in patients with chronic hepatitis C.

    abstract::An amendment to this paper has been published and can be accessed via a link at the top of the paper. ...

    journal_title:Scientific reports

    pub_type: 已发布勘误

    doi:10.1038/s41598-020-58227-9

    authors: Baiocchini A,Del Nonno F,Taibi C,Visco-Comandini U,D'Offizi G,Piacentini M,Falasca L

    更新日期:2020-01-24 00:00:00

  • Modelling Dunes from Lençóis Maranhenses National Park (Brazil): Largest dune field in South America.

    abstract::This paper presents a digital elevation model (DEM) of the dunes found in the Lençóis Maranhenses National Park, an environmental protection area located in the Maranhão state (Brazil). The DEM supports the modeling studies of sand-dune evolution using multi-temporal satellite images and ground truth data, obtained th...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-019-43735-0

    authors: Dos Santos ALS,Borges HP,Silva Junior CHL,Piedade Junior RN,da Silva Bezerra D

    更新日期:2019-05-15 00:00:00

  • Prevalence and pattern of comorbidities in chronic rheumatic and musculoskeletal diseases: the COMORD study.

    abstract::Increased risk of comorbidities has been reported in Rheumatic and Musculoskeletal Diseases (RMD). We aimed to evaluate the prevalence and pattern of comorbidities in RMD patients nationwide, to identify multimorbidity clusters and to evaluate the gap between recommendations and real screening. Cross-sectional, multic...

    journal_title:Scientific reports

    pub_type: 杂志文章,多中心研究

    doi:10.1038/s41598-020-64732-8

    authors: Ziade N,El Khoury B,Zoghbi M,Merheb G,Abi Karam G,Mroue' K,Messaykeh J

    更新日期:2020-05-06 00:00:00

  • Phylogenetic relationships of subfamilies in the family Hesperiidae (Lepidoptera: Hesperioidea) from China.

    abstract::Hesperiidae is one of the largest families of butterflies. Our knowledge of the higher systematics on hesperiids from China is still very limited. We infer the phylogenetic relationships of the subfamilies of Chinese skippers based on three mitochondrial genes (cytochrome b (Cytb), the NADH dehydrogenase subunit 1 (ND...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep11140

    authors: Yuan X,Gao K,Yuan F,Wang P,Zhang Y

    更新日期:2015-06-10 00:00:00

  • A biomolecular anthropological investigation of William Adams, the first SAMURAI from England.

    abstract::William Adams (Miura Anjin) was an English navigator who sailed with a Dutch trading fleet to the far East and landed in Japan in 1600. He became a vassal under the Shogun, Tokugawa Ieyasu, was bestowed with a title, lands and swords, and became the first SAMURAI from England. "Miura" comes from the name of the territ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-78723-2

    authors: Mizuno F,Ishiya K,Matsushita M,Matsushita T,Hampson K,Hayashi M,Tokanai F,Kurosaki K,Ueda S

    更新日期:2020-12-10 00:00:00

  • FOXO1 overexpression and loss of pSerine256-FOXO1 expression predicts clinical outcome in esophageal adenocarcinomas.

    abstract::The function of Forkhead box O 1 (FOXO1) and pSerine256-FOXO1 immunostaining in esophageal cancer is unclear. To clarify the prognostic role of nuclear FOXO1 and cytoplasmic pSerine256-FOXO1 immunostaining, a tissue microarray containing more than 600 esophageal cancers was analyzed. In non-neoplastic esophageal mucos...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-35459-4

    authors: Grupp K,Uzunoglu FG,Melling N,Hofmann B,El Gammal AT,Grotelüschen R,Heumann A,Bellon E,Reeh M,Wolters-Eisfeld G,Ghabdan T,Nentwich M,Bachmann K,Bockhorn M,Bogoevski D,Izbicki JR,Kutup A

    更新日期:2018-11-26 00:00:00

  • Novel ZnO hollow-nanocarriers containing paclitaxel targeting folate-receptors in a malignant pH-microenvironment for effective monitoring and promoting breast tumor regression.

    abstract::Low pH in the tumor micromilieu is a recognized pathological feature of cancer. This attribute of cancerous cells has been targeted herein for the controlled release of chemotherapeutics at the tumour site, while sparing healthy tissues. To this end, pH-sensitive, hollow ZnO-nanocarriers loaded with paclitaxel were sy...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep11760

    authors: Puvvada N,Rajput S,Kumar BNP,Sarkar S,Konar S,Brunt KR,Rao RR,Mazumdar A,Das SK,Basu R,Fisher PB,Mandal M,Pathak A

    更新日期:2015-07-06 00:00:00

  • Improvements in structural and optical properties of wafer-scale hexagonal boron nitride film by post-growth annealing.

    abstract::Remarkable improvements in both structural and optical properties of wafer-scale hexagonal boron nitride (h-BN) films grown by metal-organic chemical vapor deposition (MOCVD) enabled by high-temperature post-growth annealing is presented. The enhanced crystallinity and homogeneity of the MOCVD-grown h-BN films grown a...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-019-47093-9

    authors: Lee SH,Jeong H,Okello OFN,Xiao S,Moon S,Kim DY,Kim GY,Lo JI,Peng YC,Cheng BM,Miyake H,Choi SY,Kim JK

    更新日期:2019-07-22 00:00:00

  • Cross-tissue Analysis of Gene and Protein Expression in Normal and Cancer Tissues.

    abstract::The central dogma of molecular biology describes the translation of genetic information from mRNA to protein, but does not specify the quantitation or timing of this process across the genome. We have analyzed protein and gene expression in a diverse set of human tissues. To study concordance and discordance of gene a...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep24799

    authors: Kosti I,Jain N,Aran D,Butte AJ,Sirota M

    更新日期:2016-05-04 00:00:00

  • Comprehensive quantification of triacylglycerols in soybean seeds by electrospray ionization mass spectrometry with multiple neutral loss scans.

    abstract::Soybean seeds are an important source of vegetable oil and biomaterials. The content of individual triacylglycerol species (TAG) in soybean seeds is difficult to quantify in an accurate and rapid way. The present study establishes an approach to quantify TAG species in soybean seeds utilizing an electrospray ionizatio...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep06581

    authors: Li M,Butka E,Wang X

    更新日期:2014-10-10 00:00:00

  • Novel cultivated endophytic Verrucomicrobia reveal deep-rooting traits of bacteria to associate with plants.

    abstract::Despite the relevance of complex root microbial communities for plant health, growth and productivity, the molecular basis of these plant-microbe interactions is not well understood. Verrucomicrobia are cosmopolitans in the rhizosphere, nevertheless their adaptations and functions are enigmatic since the proportion of...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-65277-6

    authors: Bünger W,Jiang X,Müller J,Hurek T,Reinhold-Hurek B

    更新日期:2020-05-26 00:00:00

  • Imbalanced network biomarkers for traditional Chinese medicine Syndrome in gastritis patients.

    abstract::Cold Syndrome and Hot Syndrome are thousand-year-old key therapeutic concepts in traditional Chinese medicine (TCM), which depict the loss of body homeostasis. However, the scientific basis of TCM Syndrome remains unclear due to limitations of current reductionist approaches. Here, we established a network balance mod...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep01543

    authors: Li R,Ma T,Gu J,Liang X,Li S

    更新日期:2013-01-01 00:00:00

  • Enigmatic incongruence between mtDNA and nDNA revealed by multi-locus phylogenomic analyses in freshwater snails.

    abstract::Phylogenetic incongruence has frequently been encountered among different molecular markers. Recent progress in molecular phylogenomics has provided detailed and important information for evolutionary biology and taxonomy. Here we focused on the freshwater viviparid snails (Cipangopaludina chinensis chinensis and C. c...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-019-42682-0

    authors: Hirano T,Saito T,Tsunamoto Y,Koseki J,Ye B,Do VT,Miura O,Suyama Y,Chiba S

    更新日期:2019-04-17 00:00:00

  • Quantitative metabolic imaging using endogenous fluorescence to detect stem cell differentiation.

    abstract::The non-invasive high-resolution spatial mapping of cell metabolism within tissues could provide substantial advancements in assessing the efficacy of stem cell therapy and understanding tissue development. Here, using two-photon excited fluorescence microscopy, we elucidate the relationships among endogenous cell flu...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep03432

    authors: Quinn KP,Sridharan GV,Hayden RS,Kaplan DL,Lee K,Georgakoudi I

    更新日期:2013-12-05 00:00:00

  • Corrigendum: The NAC-type transcription factor OsNAC2 regulates ABA-dependent genes and abiotic stress tolerance in rice.

    abstract::This corrects the article DOI: 10.1038/srep40641. ...

    journal_title:Scientific reports

    pub_type: 杂志文章,已发布勘误

    doi:10.1038/srep46890

    authors: Shen J,Lv B,Luo L,He J,Mao C,Xi D,Ming F

    更新日期:2017-08-29 00:00:00

  • Genome-wide transcriptomic analysis uncovers the molecular basis underlying early flowering and apetalous characteristic in Brassica napus L.

    abstract::Floral transition and petal onset, as two main aspects of flower development, are crucial to rapeseed evolutionary success and yield formation. Currently, very little is known regarding the genetic architecture that regulates flowering time and petal morphogenesis in Brassica napus. In the present study, a genome-wide...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep30576

    authors: Yu K,Wang X,Chen F,Chen S,Peng Q,Li H,Zhang W,Hu M,Chu P,Zhang J,Guan R

    更新日期:2016-07-27 00:00:00

  • Luteolin Attenuates Airway Mucus Overproduction via Inhibition of the GABAergic System.

    abstract::Airway mucus overproduction is one of the most common symptoms of asthma that causes severe clinical outcomes in patients. Despite the effectiveness of general asthma therapies, specific treatments that prevent mucus overproduction in asthma patients remain lacking. Recent studies have found that activation of GABAA r...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep32756

    authors: Shen ML,Wang CH,Lin CH,Zhou N,Kao ST,Wu DC

    更新日期:2016-09-06 00:00:00

  • Enhancement of electroluminescence from embedded Si quantum dots/SiO2multilayers film by localized-surface-plasmon and surface roughening.

    abstract::In this paper, we prepared a novel structure to enhance the electroluminescence intensity from Si quantum dots/SiO2multilayers. An amorphous Si/SiO2 multilayer film was fabricated by plasma-enhanced chemical vapor deposition on a Pt nanoparticle (NP)-coated Si nanopillar array substrate. By thermal annealing, an embed...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep11881

    authors: Li W,Wang S,Hu M,He S,Ge P,Wang J,Guo YY,Zhaowei L

    更新日期:2015-07-03 00:00:00

  • Magma dynamics within a basaltic conduit revealed by textural and compositional features of erupted ash: the December 2015 Mt. Etna paroxysms.

    abstract::In December 2015, four violent explosive episodes from Mt. Etna's oldest summit crater, the Voragine, produced eruptive columns extending up to 15 km a.s.l. and significant fallout of tephra up to a hundred km from the vent. A combined textural and compositional study was carried out on pyroclasts from three of the fo...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-017-05065-x

    authors: Pompilio M,Bertagnini A,Del Carlo P,Di Roberto A

    更新日期:2017-07-06 00:00:00

  • Comparative transcriptome analysis two genotypes of Acer truncatum Bunge seeds reveals candidate genes that influences seed VLCFAs accumulation.

    abstract::The Acer truncatum Bunge is a particular widespread forest tree species in northern China. VLCFAs are important to eukaryotes survival and play diverse roles throughout the development. So far, there are reports that the Acer truncatum seeds fatty acid (FA) rich in VLCFAs, but little is known about the physiological m...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-33999-3

    authors: Wang R,Liu P,Fan J,Li L

    更新日期:2018-10-19 00:00:00

  • Age-dependent changes in visual sensitivity induced by moving fixation points in adduction and abduction using imo perimetry.

    abstract::Visual field (VF) testing has usually been performed with the central gaze as a fixed point. Recent publications indicated optic nerve head deformations induced by optic nerve traction force can promote the progression of optic neuropathies, including glaucoma. We generated a new static test protocol that adds 6° addu...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-78147-y

    authors: Shoji T,Mine I,Kumagai T,Kosaka A,Yoshikawa Y,Shinoda K

    更新日期:2020-12-03 00:00:00

  • Waves spontaneously generated by heterogeneity in oscillatory media.

    abstract::Wave propagation is an important characteristic for pattern formation and pattern dynamics. To date, various waves in homogeneous media have been investigated extensively and have been understood to a great extent. However, the wave behaviors in heterogeneous media have been studied and understood much less. In this w...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep25177

    authors: Cui X,Huang X,Hu G

    更新日期:2016-05-04 00:00:00

  • Adipose tissue in health and disease through the lens of its building blocks.

    abstract::Understanding adipose tissue cellular heterogeneity and homeostasis is essential to comprehend the cell type dynamics in metabolic diseases. Cellular subpopulations in the adipose tissue have been related to disease development, but efforts towards characterizing the adipose tissue cell type composition are limited. H...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-67177-1

    authors: Lenz M,Arts ICW,Peeters RLM,de Kok TM,Ertaylan G

    更新日期:2020-06-26 00:00:00

  • Pattern Discovery in Brain Imaging Genetics via SCCA Modeling with a Generic Non-convex Penalty.

    abstract::Brain imaging genetics intends to uncover associations between genetic markers and neuroimaging quantitative traits. Sparse canonical correlation analysis (SCCA) can discover bi-multivariate associations and select relevant features, and is becoming popular in imaging genetic studies. The L1-norm function is not only ...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-017-13930-y

    authors: Du L,Liu K,Yao X,Yan J,Risacher SL,Han J,Guo L,Saykin AJ,Shen L,Alzheimer’s Disease Neuroimaging Initiative.

    更新日期:2017-10-25 00:00:00

  • Limiting asymmetric hearing improves benefits of bilateral hearing in children using cochlear implants.

    abstract::Neurodevelopmental changes occur with asymmetric hearing loss, limiting binaural/spatial hearing and putting children at risk for social and educational challenges. These deficits may be mitigated by providing bilateral hearing in children through auditory prostheses. Effects on speech perception and spatial hearing w...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-018-31546-8

    authors: Polonenko MJ,Papsin BC,Gordon KA

    更新日期:2018-09-04 00:00:00

  • Electrowetting lens with large aperture and focal length tunability.

    abstract::The electrowetting lenses has attracted researchers in many fields, such as biology, beam shaping, and drug delivery. Previous research on electrowetting lens has focused on neither expanding the dynamic focal length range nor reducing the wavefront aberration. However, the properties with large numerical aperture and...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/s41598-020-73260-4

    authors: Song X,Zhang H,Li D,Jia D,Liu T

    更新日期:2020-10-01 00:00:00

  • Graph distance for complex networks.

    abstract::Networks are widely used as a tool for describing diverse real complex systems and have been successfully applied to many fields. The distance between networks is one of the most fundamental concepts for properly classifying real networks, detecting temporal changes in network structures, and effectively predicting th...

    journal_title:Scientific reports

    pub_type: 杂志文章

    doi:10.1038/srep34944

    authors: Shimada Y,Hirata Y,Ikeguchi T,Aihara K

    更新日期:2016-10-11 00:00:00