Adult T-cell leukaemia/lymphoma

From Compendium of Cancer Genome Aberrations
Revision as of 23:29, 6 January 2026 by Sumire.Kitahara (talk | contribs)
(diff) ← Older revision | Latest revision (diff) | Newer revision → (diff)
Jump to navigation Jump to search
A checked version of this page, approved on 6 January 2026, was based on this revision.


Haematolymphoid Tumours (WHO Classification, 5th ed.)

Primary Author(s)*

Sumire Kitahara, MD

Cedars-Sinai Medical Center, Los Angeles, CA

WHO Classification of Disease

Structure Disease
Book Haematolymphoid Tumours (5th ed.)
Category T-cell and NK-cell lymphoid proliferations and lymphomas
Family Mature T-cell and NK-cell neoplasms
Type Mature T-cell and NK-cell leukaemias
Subtype(s) Adult T-cell leukaemia/lymphoma (ATLL)

Smouldering ATLL

Chronic ATLL

Lymphoma ATLL

Acute ATLL

Related Terminology

Acceptable Adult T-cell leukaemia/lymphoma, HTLV-1 associated
Not Recommended N/A

Gene Rearrangements

Driver Gene Fusion(s) and Common Partner Genes Molecular Pathogenesis Typical Chromosomal Alteration(s) Prevalence -Common >20%, Recurrent 5-20% or Rare <5% (Disease) Diagnostic, Prognostic, and Therapeutic Significance - D, P, T Established Clinical Significance Per Guidelines - Yes or No (Source) Clinical Relevance Details/Other Notes
CD274 (PD-L1) 3′-UTR–truncating structural variants (no protein fusion)[1] Loss of 3′-UTR microRNA regulation → PD-L1 overexpression → immune evasion Deletions, inversions, duplications, translocations at 9p24.1 disrupting 3′-UTR Common (≈20–25% of ATLL in large cohorts) T No Highlights immune-evasion axis and immune checkpoint biology, but PD-1 blockade has shown harm and induced rapid progression in ATLL[2]
REL (c-Rel) 3′ truncations (no partner gene; gain-of-function)[3] C-terminal truncation removes negative-regulatory regions → transcription upregulation/activation of REL → NF-κB pathway activation 2p16.1 3′-end truncating rearrangements Recurrent (~13%) No
CD28 CTLA4::CD28

ICOS::CD28

In-frame fusion converts inhibitory CTLA4/ICOS extracellular domains into CD28 signaling tail → constitutive co-stimulation Rearrangements within 2q33 region (CTLA4/ICOS/CD28 are clustered); interstitial events/inversions Rare, but enriched in younger patients (3/8 cases, 37.5%[4]) T No Potential for CTLA4 blockade as treatment when CD28 fusions are present
BCL11B HELIOS (IKZF2)::BCL11B Transcription-factor fusion likely deregulates T-cell developmental programs t(2;14)(q34;q32) Rare (<5%; single-case report[5]) No

Individual Region Genomic Gain/Loss/LOH

ATLL with high number of chromosomal imbalances is associated with poor survival[6][7][8][9].

Chr # Gain, Loss, Amp, LOH Minimal Region Cytoband and/or Genomic Coordinates [Genome Build; Size] Relevant Gene(s) Diagnostic, Prognostic, and Therapeutic Significance - D, P, T Established Clinical Significance Per Guidelines - Yes or No (Source) Clinical Relevance Details/Other Notes
1 Amp 1p36 H6PD, VPS13D, PRDM2 No
1 Gain 1q Multiple candidates No 1q gains common in lymphoma-type ATLL[8]
2 Gain 2p BCL11A, REL No
3 Gain 3p No
4 Gain 4q No
6 Loss 6q No
7 Gain 7p, 7q No
9 Loss/homozygous deletion 9p21.3 CDKN2A/B P No More common in aggressive (acute/lymphoma) subtypes
9 Amp 9p24.1; chr9:5,450,542–5,470,554 [GRCh38; ~20 kb] PD-L1 (CD274) P No 9p24.1 amplifications of PD-L1 predict worse prognosis in both indolent and aggressive ATLL; more common in aggressive (acute/lymphoma) subtypes; included in multivariate risk model
10 Loss 10p No
13 Loss 13q32 GPR183 No More frequent in older patients
14 Gain 14q32[8][7] No
16 Loss 16q23 WWOX No
18 Loss 18p

Characteristic Chromosomal or Other Global Mutational Patterns

Cytogenetic studies show that ATLL often[10] has a complex abnormal karyotype without a single distinct abnormality. Observed recurrent abnormalities include trisomy for 3, 7 or 21 and monosomy for X as well as deletion of Y and abnormalities of chromosome 6 and 14. Chromosome 14 rearrangements involving TCRA and TCRD at 14q11 and TCL1 at 14q32 have been documented[11]. Frequent deletions in known fragile sites have been detected in over 500 patients.

Chromosomal Pattern Molecular Pathogenesis Prevalence -

Common >20%, Recurrent 5-20% or Rare <5% (Disease)

Diagnostic, Prognostic, and Therapeutic Significance - D, P, T Established Clinical Significance Per Guidelines - Yes or No (Source) Clinical Relevance Details/Other Notes
Trisomy 3, 7 or 21
Monosomy X
Deletion Y
Abnormalities of chromosome 6 and 14

Gene Mutations (SNV/INDEL)

Over 10% of ATLL cases harbor mostly gain of function mutations. ATLL harbors multiple recurrent mutations in genes involved in the TCR-NF-κB pathway, tumor suppressors, transcription factors involved in cell growth and proliferation, apoptosis, and immune surveillance[12][9][13].

Gene Genetic Alteration Tumor Suppressor Gene, Oncogene, Other Prevalence -

Common >20%, Recurrent 5-20% or Rare <5% (Disease)

Diagnostic, Prognostic, and Therapeutic Significance - D, P, T   Established Clinical Significance Per Guidelines - Yes or No (Source) Clinical Relevance Details/Other Notes
EXAMPLE:EGFR


EXAMPLE: Exon 18-21 activating mutations EXAMPLE: Oncogene EXAMPLE: Common (lung cancer) EXAMPLE: T EXAMPLE: Yes (NCCN) EXAMPLE: Exons 18, 19, and 21 mutations are targetable for therapy. Exon 20 T790M variants cause resistance to first generation TKI therapy and are targetable by second and third generation TKIs (add references).
EXAMPLE: TP53; Variable LOF mutations


EXAMPLE: Variable LOF mutations EXAMPLE: Tumor Supressor Gene EXAMPLE: Common (breast cancer) EXAMPLE: P EXAMPLE: >90% are somatic; rare germline alterations associated with Li-Fraumeni syndrome (add reference). Denotes a poor prognosis in breast cancer.
EXAMPLE: BRAF; Activating mutations EXAMPLE: Activating mutations EXAMPLE: Oncogene EXAMPLE: Common (melanoma) EXAMPLE: T

Note: A more extensive list of mutations can be found in cBioportal, COSMIC, and/or other databases. When applicable, gene-specific pages within the CCGA site directly link to pertinent external content.

editv4:Gene Mutations (SNV/INDEL)
The content below was from the old template. Please incorporate above.
Gene Mutation Oncogene/Tumor Suppressor/Other Presumed Mechanism (LOF/GOF/Other; Driver/Passenger) Prevalence (COSMIC/TCGA/Other)
PLCG1 TCR – NF-κB Signaling GOF
PKCB TCR – NF-κB Signaling GOF
CARD11 TCR – NF-κB Signaling GOF
VAV1 TCR – NF-κB Signaling GOF
CD237 TCR – NF-κB Signaling GOF
RHOA RAS-RAF-ERK pathway GOF
IRF4 Transcription Factor GOF
NOTCH1 Transcription Factor GOF
FBXW7 Transcription Factor GOF
STAT3 Transcription Factor GOF
TNFAIP3/A20 TCR – NF-κB Signaling LOF
NFKBIA/IκBα TCR – NF-κB Signaling LOF
TRAF3 TCR – NF-κB Signaling LOF
CBLB TCR – NF-κB Signaling LOF
TP53 Tumor Suppressor LOF
CDKN2 Tumor Suppressor LOF
GATA3 Transcription Factor LOF
EP300 Transcription Factor LOF
FAS Apoptosis LOF
WWOX Apoptosis LOF
HLA-B Immune Surveillance LOF
B2M Immune Surveillance LOF
PD-L1 Immune Surveillance Amplification
End of V4 Section

Epigenomic Alterations

Epigenetic alterations also result in dysregulated TCR/NF-κB signaling in ATLL. DNA hypermethylation of CpG islands is detected in 1/3rd of all ATLL patients. As a result, genes involved in Cys2-His2 (C2H2) zinc finger genes and those encoding MHC class I molecules are silenced[10].

ATLL patients have high expression of polycomb repressive complex (PRC) 2 components like EZH2, its homolog EZH1 and H3K27 methylase causing accumulation of trimethylation of H3K27 and altering the expression of over half of the genes. The severity of the disease is linked to continued down regulation of genes[14].

Genes and Main Pathways Involved

The most important genes involved in the development and progress of ATLL are the Tax and HBZ contributed by the HTLV-1 virus and genes listed in gene mutations table (above) from the host. The main pathways involved are TCR-NF-κB signaling by gain of function and amplifications in PLCG1, VAV1 and FYN, CD28, PRKCB, CARD11, IRF4 and RHOA; and loss of function mutations or deletions in CBLB, TRAF, TNFAIP3 and CSNK1A1[10].

Genes involving the immune surveillance program are also heavy altered to evade the immune response either by deletions in MHC class1 molecules, CD58, FAS or constitutive activation of PD-L1.

Genes involved in the Lymphocyte activation and differentiation(IRF4, GATA3, IKZF2) are also altered.

Chemokine receptors including CCR4 and CCR7 are responsible for the infiltration of neoplastic cells into other organs along with activation of PI3K/AKT signaling.

The epigenetic mechanism is also exploited to alter gene expression and promote ATLL progression as explained above
Gene; Genetic Alteration Pathway Pathophysiologic Outcome
EXAMPLE: BRAF and MAP2K1; Activating mutations EXAMPLE: MAPK signaling EXAMPLE: Increased cell growth and proliferation
EXAMPLE: CDKN2A; Inactivating mutations EXAMPLE: Cell cycle regulation EXAMPLE: Unregulated cell division
EXAMPLE: KMT2C and ARID1A; Inactivating mutations EXAMPLE: Histone modification, chromatin remodeling EXAMPLE: Abnormal gene expression program

Genetic Diagnostic Testing Method

Initial diagnosis of ATLL should include a comprehensive physical exam with skin evaluation and CT scans of the chest, abdomen and pelvis. The laboratory evaluation should include: a complete blood count (CBC), metabolic panel (serum electrolyte levels, calcium, creatinine and blood urea nitrogen) and serum LDH levels. Testing methods including PCR, Flow Cytometry, ELISA, serology, and immunohistochemistry in addition to morphologic studies may be employed to diagnose ATLL[15].

Familial Forms

Put your text here (Instructions: Include associated hereditary conditions/syndromes that cause this entity or are caused by this entity.)

Additional Information

Put your text here

Links

Put a link here or anywhere appropriate in this page (Instructions: Highlight the text to which you want to add a link in this section or elsewhere, select the "Link" icon at the top of the wiki page, and search the name of the internal page to which you want to link this text, or enter an external internet address by including the "http://www." portion.)

References

  1. ↑ Kataoka, Keisuke; et al. (2016-06-16). "Aberrant PD-L1 expression through 3'-UTR disruption in multiple cancers". Nature. 534 (7607): 402–406. doi:10.1038/nature18294. ISSN 1476-4687. PMID 27281199.
  2. ↑ Rauch, Daniel A.; et al. (2019-10-24). "Rapid progression of adult T-cell leukemia/lymphoma as tumor-infiltrating Tregs after PD-1 blockade". Blood. 134 (17): 1406–1414. doi:10.1182/blood.2019002038. ISSN 1528-0020. PMC 6839957. PMID 31467059.
  3. ↑ Kogure, Yasunori; et al. (2022-02-17). "Whole-genome landscape of adult T-cell leukemia/lymphoma". Blood. 139 (7): 967–982. doi:10.1182/blood.2021013568. ISSN 0006-4971. PMC 8854674 Check |pmc= value (help). PMID 34695199 Check |pmid= value (help).
  4. ↑ Yoshida, Noriaki; et al. (2020-04-23). "Genomic landscape of young ATLL patients identifies frequent targetable CD28 fusions". Blood. 135 (17): 1467–1471. doi:10.1182/blood.2019001815. ISSN 1528-0020. PMC 7180081 Check |pmc= value (help). PMID 31961925.
  5. ↑ Fujimoto, Rika; et al. (2012). "HELIOS-BCL11B fusion gene involvement in a t(2;14)(q34;q32) in an adult T-cell leukemia patient". Cancer Genetics. 205 (7–8): 356–364. doi:10.1016/j.cancergen.2012.04.006. ISSN 2210-7762. PMID 22867996.
  6. ↑ Itoyama, T.; et al. (2001-06-01). "Cytogenetic analysis and clinical significance in adult T-cell leukemia/lymphoma: a study of 50 cases from the human T-cell leukemia virus type-1 endemic area, Nagasaki". Blood. 97 (11): 3612–3620. doi:10.1182/blood.v97.11.3612. ISSN 0006-4971. PMID 11369658.
  7. ↑ 7.0 7.1 Tsukasaki, K.; et al. (2001-06-15). "Comparative genomic hybridization analysis in adult T-cell leukemia/lymphoma: correlation with clinical course". Blood. 97 (12): 3875–3881. doi:10.1182/blood.v97.12.3875. ISSN 0006-4971. PMID 11389029.
  8. ↑ 8.0 8.1 8.2 Oshiro, Aya; et al. (2006-06-01). "Identification of subtype-specific genomic alterations in aggressive adult T-cell leukemia/lymphoma". Blood. 107 (11): 4500–4507. doi:10.1182/blood-2005-09-3801. ISSN 0006-4971. PMID 16484591.
  9. ↑ 9.0 9.1 Kataoka, Keisuke; et al. (01 11, 2018). "Prognostic relevance of integrated genetic profiling in adult T-cell leukemia/lymphoma". Blood. 131 (2): 215–225. doi:10.1182/blood-2017-01-761874. ISSN 1528-0020. PMC 5757690. PMID 29084771. Check date values in: |date= (help)
  10. ↑ 10.0 10.1 10.2 Kataoka, Keisuke; et al. (2015-11). "Integrated molecular analysis of adult T cell leukemia/lymphoma". Nature Genetics. 47 (11): 1304–1315. doi:10.1038/ng.3415. ISSN 1546-1718. PMID 26437031. Check date values in: |date= (help)
  11. ↑ "Correlation of chromosome abnormalities with histologic and immunologic characteristics in non-Hodgkin's lymphoma and adult T cell leukemia-lymphoma. Fifth International Workshop on Chromosomes in Leukemia-Lymphoma". Blood. 70 (5): 1554–1564. 1987-11. ISSN 0006-4971. PMID 2889485. Check date values in: |date= (help)
  12. ↑ Kogure, Yasunori; et al. (2017-09). "Genetic alterations in adult T-cell leukemia/lymphoma". Cancer Science. 108 (9): 1719–1725. doi:10.1111/cas.13303. ISSN 1349-7006. PMC 5581529. PMID 28627735. Check date values in: |date= (help)
  13. ↑ Kataoka, Keisuke; et al. (2015-11). "Integrated molecular analysis of adult T cell leukemia/lymphoma". Nature Genetics. 47 (11): 1304–1315. doi:10.1038/ng.3415. ISSN 1546-1718. PMID 26437031. Check date values in: |date= (help)
  14. ↑ Fujikawa, Dai; et al. (2016-04-07). "Polycomb-dependent epigenetic landscape in adult T-cell leukemia". Blood. 127 (14): 1790–1802. doi:10.1182/blood-2015-08-662593. ISSN 1528-0020. PMID 26773042.
  15. ↑ NCCN Clinical Practice Guidelines in Oncology, T-Cell Lymphomas, Version 1.2021. Available at NCCN.org.


Notes

*Primary authors will typically be those that initially create and complete the content of a page.  If a subsequent user modifies the content and feels the effort put forth is of high enough significance to warrant listing in the authorship section, please contact the Associate Editor or other CCGA representative.  When pages have a major update, the new author will be acknowledged at the beginning of the page, and those who contributed previously will be acknowledged below as a prior author.

Prior Author(s):

Prasad R. Kopparapu, PhD and Ferrin C. Wheeler, PhD, FACMG


*Citation of this Page: “Adult T-cell leukaemia/lymphoma”. Compendium of Cancer Genome Aberrations (CCGA), Cancer Genomics Consortium (CGC), updated 01/6/2026, https://ccga.io/index.php/HAEM5:Adult_T-cell_leukaemia/lymphoma.

Retrieved from "https://test.ccga.io/index.php?title=HAEM5:Adult_T-cell_leukaemia/lymphoma&oldid=20035"