Abstract:
BACKGROUND:As one of the genetic mechanisms for adaptive immunity, V(D)J recombination generates an enormous repertoire of T-cell receptors (TCRs). With the development of high-throughput sequencing techniques, systematic exploration of V(D)J recombination becomes possible. Multiplex PCR has been previously developed to assay immune repertoire; however, the use of primer pools leads to inherent biases in target amplification. In our study, we developed a "single-primer" ligation-anchored PCR method that may amplify the repertoire with much less biases. RESULTS:By utilizing a universal primer paired with a single primer targeting the conserved constant region, we amplified TCR-beta (TRB) variable regions from total RNA extracted from blood. Next-generation sequencing libraries were then prepared for Illumina HiSeq 2500 sequencer, which generates 151-bp read length to cover the entire V(D)J recombination region. We evaluated this approach on blood samples from healthy donors and from patients with malignant and benign meningiomas. Mapping of sequencing data showed that 64% to 96% of mapped TCRV-containing reads belong to TRB subtype. An increased usage of specific V segments and V-J pairing were observed in malignant meningiomas samples. The CDR3 sequences of the expanded V-J pairs were distinct in each malignant individual, even for pairing of TRBV7-3 with TRBJ2-2 that showed increased usage in both cases. CONCLUSIONS:We demonstrated the technical feasibility and effectiveness of ligation-anchored PCR approach in capturing the TCR-beta landscapes. Further development of this technology may enable a comprehensive delineation of immune repertoire, including other forms of TCRs as well as immunoglobulins.
journal_name
BMC Biotechnoljournal_title
BMC biotechnologyauthors
Gao F,Wang Kdoi
10.1186/s12896-015-0153-9subject
Has Abstractpub_date
2015-05-28 00:00:00pages
39issn
1472-6750pii
10.1186/s12896-015-0153-9journal_volume
15pub_type
杂志文章abstract:BACKGROUND:The proteomics literature has seen a proliferation of publications that seek to apply the rapidly improving technology of 2D gels to study various biological systems. However, there is a dearth of systematic studies that have investigated appropriate statistical approaches to analyse the data from these expe...
journal_title:BMC biotechnology
pub_type: 杂志文章
doi:10.1186/1472-6750-5-7
更新日期:2005-02-11 00:00:00
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journal_title:BMC biotechnology
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journal_title:BMC biotechnology
pub_type: 杂志文章
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journal_title:BMC biotechnology
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更新日期:2010-07-05 00:00:00
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journal_title:BMC biotechnology
pub_type: 杂志文章
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更新日期:2016-05-12 00:00:00
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更新日期:2015-05-16 00:00:00
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pub_type: 杂志文章
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更新日期:2006-03-06 00:00:00
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更新日期:2016-03-11 00:00:00
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journal_title:BMC biotechnology
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更新日期:2016-01-16 00:00:00
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pub_type: 杂志文章
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更新日期:2011-03-23 00:00:00
abstract:: ...
journal_title:BMC biotechnology
pub_type: 杂志文章
doi:10.1186/s12896-019-0504-z
更新日期:2019-02-18 00:00:00
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journal_title:BMC biotechnology
pub_type: 杂志文章
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journal_title:BMC biotechnology
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更新日期:2017-11-16 00:00:00
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journal_title:BMC biotechnology
pub_type: 杂志文章
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更新日期:2014-01-30 00:00:00
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更新日期:2011-06-09 00:00:00