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Biology subjects

Smith, M. J.

Publications and source records attributed to Smith, M. J..

3 recordsLinked to original sources

The adequacy of tissue microarrays in the assessment of inter- and intra-tumoural heterogeneity of infiltrating lymphocyte burden in leiomyosarcoma

The characterisation and clinical relevance of tumour-infiltrating lymphocytes (TILs) in leiomyosarcoma (LMS), a subtype of soft tissue sarcoma that exhibits histological heterogeneity, is not established. The use of tissue microarrays (TMA) in studies that profile TIL burden is attractive but given the potential for intra-tumoural heterogeneity to introduce sampling errors, the adequacy of this approach is undetermined. In this study, we assessed the histological inter-and intra-tumoural heterogeneity in TIL burden within a retrospective cohort of primary LMS specimens. Using a virtual TMA approach, we also analysed the optimal number of TMA cores required to provide an accurate representation of TIL burden in a full tissue section. We establish that LMS have generally low and spatially homogenous TIL burdens, although a small proportion exhibit higher levels and more heterogeneous distribution of TILs. We show that a conventional and practical number (1-3) of TMA cores is adequate for correct ordinal categorisation of tumours with high or low TIL burden, but that many more cores ([≥] 11) is required to accurately estimate absolute TIL numbers. Our findings provide a benchmark for the design of future studies aiming to define the clinical relevance of the immune microenvironments of LMS and other sarcoma subtypes.

cancer biology

Inherited BRCA1 epimutation as a novel cause of breast and ovarian cancer

BackgroundPathogenic variants in BRCA1 or BRCA2 are identified in ~20% of families with multiple individuals with early-onset breast/ovarian cancer. Extensive searches for additional highly penetrant genes or alternative mutational mechanisms altering BRCA1/2 have not explained the missing heritability. For the first time, we report transgenerational epigenetic silencing of BRCA1 due to promoter hypermethylation in two families with breast/ovarian cancer.\n\nMethodsBRCA1 promoter methylation of ten CpG dinucleotides in breast/ovarian cancer families without germline BRCA1/2 pathogenic variants was assessed by pyrosequencing and clonal bisulfite sequencing. RNA and DNA sequencing of BRCA1 from lymphocytes was undertaken to establish allelic expression and the presence of germline variants.\n\nFindingsBRCA1 promoter hypermethylation was identified in two of 49 families with multiple women affected with grade 3 breast/high grade serous ovarian cancer. Soma-wide BRCA1 promoter hypermethylation was confirmed in blood, buccal mucosa and hair follicles. Methylation levels were ~50%, consistent with the silencing of one allele and confirmed by clonal bisulfite sequencing. RNA sequencing revealed allelic loss of BRCA1 expression in both families and this segregated with a novel heterozygous variant c.-107A>T in the BRCA1 5UTR.\n\nInterpretationOur results indicate a novel mechanism for familial breast/ovarian cancer, caused by epigenetic silencing of the BRCA1 promoter, segregating with an in cis 5UTR variant in two independent families. We propose that methylation analyses are indicated in all families affected by early onset breast/ovarian cancer without a BRCA1/2 pathogenic variant.\n\nFundingFunded by Prevent Breast Cancer (GA 12-006 and GA 15-002) and the Manchester NIHR Biomedical Research Centre (IS-BRC-1215-20007).

genetics

Observation of histone nuclear import in living cells: implications in the processing of newly synthesised H3.1 & H4

Highlights- Small-molecule-gated tether-and-release system for rapid pulse-chase of nuclear proteins\n- Tracking nuclear import of histone H3.1 and H4 and their incorporation at sites of active replication\n- Tethered H3.1 and H4 are monomeric and do not associate with ASF1, NASP, RbAp46 or HAT1 in the cytosol\n- Importin-{beta} proteins as cytosolic binders of monomeric histones\n\n\nSummaryWe present here a cytosolic tether-and-release system to study the import and dynamics of newly synthesised nuclear proteins. Release is gated by rapamycin-induced recruitment and activation of a viral protease, with cleavage of a peptide linker releasing the tethered cargo. We use this system to investigate nucleo-cytoplasmic divisions in the histone H3.1 & H4 deposition pathway, revealing that, contrary to previous analyses, H3.1 and H4 are predominantly monomeric in the cytosol, and only associate with the core histone chaperoning machinery after translocation to the nucleus. Whilst we do not detect interaction with known H3-H4 chaperones in the cytosol we do detect interaction with a number of importin-{beta} proteins, that may serve a dual import and chaperoning function, preventing aggregation of histones until they are handed-off to the core histone chaperoning machinery in the nucleus.

molecular biology