Vikas Kumar

Dr. Vikas Kumar

Genetics, Cell Biology & Anatomy, University of Nebraska Medical Center, Omaha, Nebraska, USA
orcid

Research Focus & Metrics

Academic Career Length

25Years (2002-Present)

(Calculated once Scilit publication data is synced: current year − year of first publication + 1)

Representative Publications

View All Publications
21 December 2015 in PLOS ONE
Verified
Journal Article
Open access
PDF file
TBTamás Baranyai
Tamás Baranyai
KHKata Herczeg
Kata Herczeg
ZGZsofia Gulyas-Onodi
Zsofia Gulyas-Onodi
IVIstván Voszka
István Voszka
KMKároly Módos
Károly Módos
ZGZoltán Giricz
Zoltán Giricz
Exosomes are emerging targets for biomedical research. However, suitable methods for the isolation of blood plasma-derived exosomes without impurities have not yet been described. Therefore, we investigated the efficiency and purity of exosomes isolated with potentially suitable methods; differential ultracentrifugation (UC) and size exclusion chromatography (SEC). Exosomes were isolated from rat and human blood plasma by various UC and SEC conditions. Efficiency was investigated at serial UC of the supernatant, while in case of SEC by comparing the content of exosomal markers of various fractions. Purity was assessed based on the presence of albumin. We found that the diameter of the majority of isolated particles fell into the size range of exosomes, however, albumin was also present in the preparations, when 1h UC at 4°C was applied. Furthermore, with this method only a minor fraction of total exosomes could be isolated from blood as deduced from the constant amount of exosomal markers CD63 and TSG101 detected after serial UC of rat blood plasma samples. By using UC for longer time or with shorter sedimentation distance at 4°C, or UC performed at 37°C, exosomal yield increased, but albumin impurity was still observed in the isolates, as assessed by transmission electron microscopy, dynamic light scattering and immunoblotting against CD63, TSG101 and albumin. Efficiency and purity were not different in case of using further diluted samples. By using SEC with different columns, we have found that although a minor fraction of exosomes can be isolated without significant albumin content on Sepharose CL-4B or Sephacryl S-400 columns, but not on Sepharose 2B columns, the majority of exosomes co-eluted with albumin. Here we show that it is feasible to isolate exosomes from blood plasma by SEC without significant albumin contamination albeit with low vesicle yield.

1 April 2005 in Cell
Verified
Journal Article
Closed access
DSDinesh Kumar Singh
Dinesh Kumar Singh
DKDhiraj Kumar
Dhiraj Kumar
ZSZaved Siddiqui
Zaved Siddiqui
SBSandip Kumar Basu
Sandip Kumar Basu
VKVikas Kumar
Vikas Kumar
KRKanury V.S. Rao
Kanury V.S. Rao

30 January 2017 in Proceedings of the National Academy of Sciences
Verified
Journal Article
Closed access
PDF file
SKSantosh Kumar
Santosh Kumar
YKYoung-Rae Kim
Young-Rae Kim
Ajit VikramAjit Vikram
Ajit Vikram
ANAsma Naqvi
Asma Naqvi
QLQiuxia Li
Qiuxia Li
KIKaikobad Irani
Kaikobad Irani
Significance: Many oxidative stimuli engage the 66-kDa Src homology 2 domain-containing protein (p66Shc) to induce reactive oxygen species (ROS). ROS regulated by p66Shc promotes aging and contributes to cancer, diabetes, obesity, cardiomyopathy, and atherosclerosis. Here we identify a fundamental mechanism that controls p66Shc and p66Shc-regulated ROS. We show that p66Shc is lysine acetylated when cells are faced with an oxidative stimulus (diabetes), and lysine acetylation of p66Shc is obligatory for p66Shc-induced ROS. In addition, lysine-acetylated p66Shc is deacetylated by the Sirtuin1 lysine deacetylase, and Sirt1-mediated deacetylation of p66Shc curtails ROS production. This intersection between p66Shc and Sirtuin1 adds a dimension to how p66Shc is regulated by certain stimuli and how Sirtuin1 suppresses oxidative stress promoted by such stimuli.

22 July 2019 in The FEBS Journal
Verified
Journal Article
Open access
PDF file
BMBertin Mary
Bertin Mary
SMShubham Maurya
Shubham Maurya
SASathyathithan Arumugam
Sathyathithan Arumugam
VKVikas Kumar
Vikas Kumar
GJGiridhara R. Jayandharan
Giridhara R. Jayandharan
Post‐translational modifications in viral capsids are known to fine‐tune and regulate several aspects of the infective life cycle of several viruses in the host. Recombinant viruses that are generated in a specific producer cell line are likely to inherit unique post‐translational modifications during intra‐cellular maturation of its capsid proteins. Data on such post‐translational modifications in the capsid of recombinant adeno‐associated virus serotypes (AAV1‐rh10) is limited. We have employed liquid chromatography and mass spectrometry analysis to characterize post‐translational modifications in AAV1‐rh10 capsid protein. Our analysis revealed a total of 52 post‐translational modifications in AAV2‐AAVrh10 capsids, including ubiquitination (17%), glycosylation (36%), phosphorylation (21%), SUMOylation (13%) and acetylation (11%). While AAV1 had no detectable post‐translational modification, at least four AAV serotypes had >7 post‐translational modifications in their capsid protein. About 82% of these post‐translational modifications are novel. A limited validation of AAV2 capsids by MALDI‐TOF and western blot analysis demonstrated minimal glycosylation and ubiquitination of AAV2 capsids. To further validate this, we disrupted a glycosylation site identified in AAV2 capsid (AAV2‐N253Q), which severely compromised its packaging efficiency (~ 100‐fold vs. AAV2 wild‐type vectors). In order to confirm other post‐translational modifications detected such as SUMOylation, mutagenesis of a SUMOylation site(K258Q) in AAV2 was performed. This mutant vector demonstrated reduced levels of SUMO‐1/2/3 proteins and negligible transduction, 2 weeks after ocular gene transfer. Our study underscores the heterogeneity of post‐translational modifications in AAV vectors. The data presented here, should facilitate further studies to understand the biological relevance of post‐translational modifications in AAV life cycle and the development of novel bioengineered AAV vectors for gene therapy applications.Enzymes: Trypsin, EC 3.4.21.4

13 February 2017 in Nature Medicine
Verified
Journal Article
Closed access
PDF file
Ajit VikramAjit Vikram
Ajit Vikram
CLChristopher M Lewarchik
Christopher M Lewarchik
JYJin-Young Yoon
Jin-Young Yoon
ANAsma Naqvi
Asma Naqvi
SKSantosh Kumar
Santosh Kumar
KIKaikobad Irani
Kaikobad Irani

23 September 2020 in The Journal of Physiology
Verified
Journal Article
Closed access
PDF file
LGLie Gao
Lie Gao
VKVikas Kumar
Vikas Kumar
NVNeetha Nanoth Vellichirammal
Neetha Nanoth Vellichirammal
SPSong‐Young Park
Song‐Young Park
TRTara L. Rudebush
Tara L. Rudebush
IZIrving H. Zucker
Irving H. Zucker