Blood handling and leukocyte isolation methods impact the global transcriptome of immune cells
Abstract Background Transcriptional profiling with ultra-low input methods can yield valuable insights into disease, particularly when applied to the study of immune cells using RNA-sequencing. The advent of these methods has allowed for their use in profiling cells collected in clinical trials and...
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| Format: | Article |
| Language: | English |
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BMC
2018-10-01
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| Series: | BMC Immunology |
| Subjects: | |
| Online Access: | http://link.springer.com/article/10.1186/s12865-018-0268-6 |
| _version_ | 1828496207809347584 |
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| author | Brittany A. Goods Jacqueline M. Vahey Arthur F. Steinschneider Michael H. Askenase Lauren Sansing J. Christopher Love |
| author_facet | Brittany A. Goods Jacqueline M. Vahey Arthur F. Steinschneider Michael H. Askenase Lauren Sansing J. Christopher Love |
| author_sort | Brittany A. Goods |
| collection | DOAJ |
| description | Abstract Background Transcriptional profiling with ultra-low input methods can yield valuable insights into disease, particularly when applied to the study of immune cells using RNA-sequencing. The advent of these methods has allowed for their use in profiling cells collected in clinical trials and other studies that involve the coordination of human-derived material. To date, few studies have sought to quantify what effects that collection and handling of this material can have on resulting data. Results We characterized the global effects of blood handling, methods for leukocyte isolation, and preservation media on low numbers of immune cells isolated from blood. We found overall that storage/shipping temperature of blood prior to leukocyte isolation and sorting led to global changes in both CD8+ T cells and monocytes, including alterations in immune-related gene sets. We found that the use of a leukocyte filtration system minimized these alterations and we applied this method to generate high-quality transcriptional data from sorted immune cells isolated from the blood of intracerebral hemorrhage patients and matched healthy controls. Conclusions Our data underscore the necessity of processing samples with comparably defined protocols prior to transcriptional profiling and demonstrate that a filtration method can be applied to quickly isolate immune cells of interest while minimizing transcriptional bias. |
| first_indexed | 2024-12-11T12:25:43Z |
| format | Article |
| id | doaj.art-a1bfd6feff044664825f0b6fb62434d5 |
| institution | Directory Open Access Journal |
| issn | 1471-2172 |
| language | English |
| last_indexed | 2024-12-11T12:25:43Z |
| publishDate | 2018-10-01 |
| publisher | BMC |
| record_format | Article |
| series | BMC Immunology |
| spelling | doaj.art-a1bfd6feff044664825f0b6fb62434d52022-12-22T01:07:25ZengBMCBMC Immunology1471-21722018-10-0119111210.1186/s12865-018-0268-6Blood handling and leukocyte isolation methods impact the global transcriptome of immune cellsBrittany A. Goods0Jacqueline M. Vahey1Arthur F. Steinschneider2Michael H. Askenase3Lauren Sansing4J. Christopher Love5Department of Biological Engineering, Koch Institute for Integrative Cancer Research at the Massachusetts Institute of TechnologyDepartment of Electrical Engineering and Computer Science, Massachusetts Institute of TechnologyDepartment of Neurology, Yale School of MedicineDepartment of Neurology, Yale School of MedicineDepartment of Neurology, Yale School of MedicineDepartment of Biological Engineering, Koch Institute for Integrative Cancer Research at the Massachusetts Institute of TechnologyAbstract Background Transcriptional profiling with ultra-low input methods can yield valuable insights into disease, particularly when applied to the study of immune cells using RNA-sequencing. The advent of these methods has allowed for their use in profiling cells collected in clinical trials and other studies that involve the coordination of human-derived material. To date, few studies have sought to quantify what effects that collection and handling of this material can have on resulting data. Results We characterized the global effects of blood handling, methods for leukocyte isolation, and preservation media on low numbers of immune cells isolated from blood. We found overall that storage/shipping temperature of blood prior to leukocyte isolation and sorting led to global changes in both CD8+ T cells and monocytes, including alterations in immune-related gene sets. We found that the use of a leukocyte filtration system minimized these alterations and we applied this method to generate high-quality transcriptional data from sorted immune cells isolated from the blood of intracerebral hemorrhage patients and matched healthy controls. Conclusions Our data underscore the necessity of processing samples with comparably defined protocols prior to transcriptional profiling and demonstrate that a filtration method can be applied to quickly isolate immune cells of interest while minimizing transcriptional bias.http://link.springer.com/article/10.1186/s12865-018-0268-6Immune profilingPeripheral blood mononuclear cellsTranscriptomeRNA-seq |
| spellingShingle | Brittany A. Goods Jacqueline M. Vahey Arthur F. Steinschneider Michael H. Askenase Lauren Sansing J. Christopher Love Blood handling and leukocyte isolation methods impact the global transcriptome of immune cells BMC Immunology Immune profiling Peripheral blood mononuclear cells Transcriptome RNA-seq |
| title | Blood handling and leukocyte isolation methods impact the global transcriptome of immune cells |
| title_full | Blood handling and leukocyte isolation methods impact the global transcriptome of immune cells |
| title_fullStr | Blood handling and leukocyte isolation methods impact the global transcriptome of immune cells |
| title_full_unstemmed | Blood handling and leukocyte isolation methods impact the global transcriptome of immune cells |
| title_short | Blood handling and leukocyte isolation methods impact the global transcriptome of immune cells |
| title_sort | blood handling and leukocyte isolation methods impact the global transcriptome of immune cells |
| topic | Immune profiling Peripheral blood mononuclear cells Transcriptome RNA-seq |
| url | http://link.springer.com/article/10.1186/s12865-018-0268-6 |
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