4.7 Review

Hallmarks of Cancer: New Dimensions

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Review Genetics & Heredity

Integrating genetic and non-genetic determinants of cancer evolution by single-cell multi-omics

Anna S. Nam et al.

Summary: Cancer is an evolutionary process involving genetic and non-genetic factors, with intratumoural heterogeneity playing a key role in cancer evolution. Single-cell multi-omics technologies are essential for capturing and integrating the different layers of heritable information to study cancer evolution effectively.

NATURE REVIEWS GENETICS (2021)

Article Multidisciplinary Sciences

Fecal microbiota transplant promotes response in immunotherapy-refractory melanoma patients

Erez N. Baruch et al.

Summary: This study conducted a phase 1 clinical trial and found that FMT treatment in patients with anti-PD-1-refractory metastatic melanoma, along with reinduction of anti-PD-1 immunotherapy, resulted in clinical responses in some patients. This suggests that modulating the gut microbiota could be a promising approach in cancer treatment.

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Article Oncology

Gut Microbiome Directs Hepatocytes to Recruit MDSCs and Promote Cholangiocarcinoma

Qianfei Zhang et al.

Summary: The study demonstrates that gut dysbiosis can lead to the accumulation of PMN-MDSCs, promoting liver cancer development. However, treatment with neomycin can block this process and inhibit tumor growth, even in the absence of liver disease or colitis.

CANCER DISCOVERY (2021)

Review Cell Biology

3D chromatin architecture and epigenetic regulation in cancer stem cells

Yuliang Feng et al.

Summary: In cancer formation, cells can dedifferentiate into a stem cell-like state, giving rise to cancer stem cells with the ability to form the entire tumor and resist therapy. Studying the epigenetic mechanisms and 3D chromatin architecture is crucial for understanding tumorigenesis and cancer stem cell transformation.

PROTEIN & CELL (2021)

Review Biochemistry & Molecular Biology

Nuclear organization and regulation of the differentiated state

Eliya Bitman-Lotan et al.

Summary: Active and continued supervision is required to regulate the differentiated identity, as inability to do so is a hallmark of aging and aging-related disease. A network of nuclear regulators, including transcription factors, epigenetic regulators, and the localization of silent genes, is dedicated to maintaining cellular identity. Recent discoveries focus on mechanisms involving H3K9me3-decorated heterochromatin and the importance of nuclear lamins in cell identity, with relevance to aging and age-related disease discussed.

CELLULAR AND MOLECULAR LIFE SCIENCES (2021)

Article Multidisciplinary Sciences

Fecal microbiota transplant overcomes resistance to anti-PD-1 therapy in melanoma patients

Diwakar Davar et al.

Summary: The study demonstrated that fecal microbiota transplantation combined with anti-PD-1 therapy can overcome resistance to anti-PD-1 in a subset of PD-1 refractory melanoma patients, leading to clinical benefits. This approach induced changes in the gut microbiome and reprogrammed the tumor microenvironment, ultimately enhancing the efficacy of anti-PD-1 treatment.

SCIENCE (2021)

Article Oncology

Nongenetic Evolution Drives Lung Adenocarcinoma Spatial Heterogeneity and Progression

Daniele Tavernari et al.

Summary: This study provides a detailed molecular map of intratumor spatial heterogeneity in lung adenocarcinoma, revealing non-genetic routes of cancer evolution. The transition from indolent to aggressive patterns in tumors is driven by epigenetic and transcriptional reprogramming reshaping cancer cell identity rather than genetic alterations. Highly multiplexed protein spatial profiling shows the coexistence of immune desert, inflamed, and excluded regions within individual tumors, matching histologic pattern composition.

CANCER DISCOVERY (2021)

Article Multidisciplinary Sciences

Gut bacteria identified in colorectal cancer patients promote tumourigenesis via butyrate secretion

Shintaro Okumura et al.

Summary: Research has found that 12 bacterial taxa are enriched in CRC patients, with two Porphyromonas species accelerating CRC onset through butyrate secretion. The invasion of these bacteria in CRC tissues leads to elevated butyrate levels and senescence-associated inflammatory phenotypes.

NATURE COMMUNICATIONS (2021)

Review Immunology

Control of Immunity by the Microbiota

Eduard Ansaldo et al.

Summary: The immune system has evolved in conjunction with microbial communities of the microbiota residing on barrier sites. Microbial antigens and metabolites continuously interact with the immune system, leading to microbiota-specific immune responses without inflammation. This homeostatic immunity involves various arms of immunity at different barrier sites, and dysregulation of immunity to the microbiota can result in inflammation and disease, with unresolved questions and controversies surrounding immune system-microbiota interactions.

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Article Oncology

Cancer Cells Retrace a Stepwise Differentiation Program during Malignant Progression

Sadegh Saghafinia et al.

Summary: Pancreatic neuroendocrine tumors consist of two subtypes: relatively benign islet tumors and invasive, metastasis-like primary tumors. The aggressive MLP tumors are revealed to arise from dedifferentiation of IT tumors along the developmental pathway of islet beta cells. This dedifferentiation step, separate from proliferation, leads to increased HMGB3 expression and is associated with higher-grade tumors and worse survival in patients.

CANCER DISCOVERY (2021)

Article Multidisciplinary Sciences

How microbiota improve immunotherapy

Eduard Ansaldo et al.

SCIENCE (2021)

Article Multidisciplinary Sciences

Enterococcus peptidoglycan remodeling promotes checkpoint inhibitor cancer immunotherapy

Matthew E. Griffin et al.

Summary: This study found that members of the Enterococcus bacterial genus can improve checkpoint inhibitor immunotherapy in mouse tumor models through the expression and secretion of immune-active murpeptides. Additionally, expression of this enzyme in nonprotective bacteria can also enhance immunotherapy response, requiring another bacterial sensor for its activity.

SCIENCE (2021)

Review Oncology

Cellular Plasticity: A Route to Senescence Exit and Tumorigenesis

Hadrien De Blander et al.

Summary: Cellular senescence is a form of cell cycle arrest induced by stresses like DNA damage and oncogenes, serving as a crucial barrier against cancer. However, senescent cells can evolve towards a pre-cancerous genotype and promote malignant phenotypes. Accumulated senescent cells not cleared by the immune system may secrete pro-inflammatory factors, further contributing to tumor development.

CANCERS (2021)

Review Cell Biology

Butyrate and the Intestinal Epithelium: Modulation of Proliferation and Inflammation in Homeostasis and Disease

Pooja S. Salvi et al.

Summary: Butyrate acts as a link between the intestinal microbiome and epithelium, affecting colon, tumors, stem cells, and inflammatory diseases differently. It also regulates cellular inflammation, antigen tolerance, and the pathogenesis of intestinal diseases.
Review Immunology

Living in Your Skin: Microbes, Molecules, and Mechanisms

Mary Hannah Swaney et al.

Summary: The human skin functions as a barrier against the external environment and provides protection for the skin microbiome, which includes resident microbiota. The cooperation between the microbiome, host skin cells, and the immune system is crucial for maintaining skin health. Disruption of this balance, such as pathogen invasion, can impair skin function.

INFECTION AND IMMUNITY (2021)

Review Oncology

Linking EMT programmes to normal and neoplastic epithelial stem cells

Arthur W. Lambert et al.

Summary: Epithelial stem cells play critical roles in tissue generation, maintenance, and repair, while cancer stem cells are implicated in the growth and recurrence of many carcinomas. The activation of epithelial-mesenchymal transition (EMT) is linked to the formation of both normal and neoplastic stem cells, but the mechanistic basis of this connection remains unclear. Understanding the elusive links between EMT programs and the stem cell state will advance our knowledge of normal stem cell biology and cancer pathogenesis.

NATURE REVIEWS CANCER (2021)

Article Immunology

Gut microbiome stability and dynamics in healthy donors and patients with non-gastrointestinal cancers

Allyson L. Byrd et al.

Summary: This study found that the microbiome is associated with host factors such as biological sex, age, and disease state, with sex being the strongest driver of community composition. Microbial populations shift across age groups and disease states, displaying predictable variations.

JOURNAL OF EXPERIMENTAL MEDICINE (2021)

Review Oncology

The role of SOX family members in solid tumours and metastasis

Daniela Grimm et al.

SEMINARS IN CANCER BIOLOGY (2020)

Review Biotechnology & Applied Microbiology

The great escape: tumour cell plasticity in resistance to targeted therapy

Soufiane Boumahdi et al.

NATURE REVIEWS DRUG DISCOVERY (2020)

Article Multidisciplinary Sciences

Mutational signature in colorectal cancer caused by genotoxic pks+E. coli

Cayetano Pleguezuelos-Manzano et al.

NATURE (2020)

Article Multidisciplinary Sciences

Epigenetic therapy inhibits metastases by disrupting premetastatic niches

Zhihao Lu et al.

NATURE (2020)

Review Microbiology

The Human Oral Microbiome in Health and Disease: From Sequences to Ecosystems

Jesse R. Willis et al.

MICROORGANISMS (2020)

Article Oncology

Writers, readers and erasers of RNA modifications in cancer

Rosaura Esteve-Puig et al.

CANCER LETTERS (2020)

Article Biochemistry & Molecular Biology

Metabolic Regulation of the Epigenome Drives Lethal Infantile Ependymoma

Kulandaimanuvel Antony Michealraj et al.

Article Multidisciplinary Sciences

The human tumor microbiome is composed of tumor type-specific intracellular bacteria

Deborah Nejman et al.

SCIENCE (2020)

Review Biochemistry & Molecular Biology

Disruption of the RNA modifications that target the ribosome translation machinery in human cancer

Maxime Janin et al.

MOLECULAR CANCER (2020)

Editorial Material Oncology

Studying Lineage Plasticity One Cell at a Time

Benjamin J. Drapkin et al.

CANCER CELL (2020)

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Emergence of a High-Plasticity Cell State during Lung Cancer Evolution

Nemanja Despot Marjanovic et al.

CANCER CELL (2020)

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Understanding the Deadly Silence of Posterior Fossa A Ependymoma

Grant L. Lin et al.

MOLECULAR CELL (2020)

Article Multidisciplinary Sciences

Senolytic CAR T cells reverse senescence-associated pathologies

Corina Amor et al.

NATURE (2020)

Article Multidisciplinary Sciences

The gut microbiome switches mutant p53 from tumour-suppressive to oncogenic

Eliran Kadosh et al.

NATURE (2020)

Article Multidisciplinary Sciences

Microbiome-derived inosine modulates response to checkpoint inhibitor immunotherapy

Lukas F. Mager et al.

SCIENCE (2020)

Review Cell Biology

EMT, MET, Plasticity, and Tumor Metastasis

Basil Bakir et al.

TRENDS IN CELL BIOLOGY (2020)

Review Cell Biology

Senescence and the SASP: many therapeutic avenues

Jodie Birch et al.

GENES & DEVELOPMENT (2020)

Review Cell Biology

On the evolution of cellular senescence

Axel Kowald et al.

AGING CELL (2020)

Article Genetics & Heredity

Pan-cancer single-cell RNA-seq identifies recurring programs of cellular heterogeneity

Gabriela S. Kinker et al.

NATURE GENETICS (2020)

Review Oncology

The dormant cancer cell life cycle

Tri Giang Phan et al.

NATURE REVIEWS CANCER (2020)

Review Oncology

Senescent Cells in Cancer Therapy: Friends or Foes?

Boshi Wang et al.

TRENDS IN CANCER (2020)

Article Biochemistry & Molecular Biology

Commensal Microbiota Promote Lung Cancer Development via γδ T Cells

Chengcheng Jin et al.

Review Biochemistry & Molecular Biology

The microbiome, cancer, and cancer therapy

Beth A. Helmink et al.

NATURE MEDICINE (2019)

Review Oncology

Vessel co-option in cancer

Elizabeth A. Kuczynski et al.

NATURE REVIEWS CLINICAL ONCOLOGY (2019)

Review Oncology

The microbiome and oral cancer: More questions than answers

Claire M. Healy et al.

ORAL ONCOLOGY (2019)

Review Genetics & Heredity

DNA Methylation Reprogramming during Mammalian Development

Yang Zeng et al.

Review Oncology

Cellular Plasticity in Cancer

Salina Yuan et al.

CANCER DISCOVERY (2019)

Review Oncology

Exploring the emerging role of the microbiome in cancer immunotherapy

Jessica Fessler et al.

JOURNAL FOR IMMUNOTHERAPY OF CANCER (2019)

Article Multidisciplinary Sciences

α-Ketoglutarate links p53 to cell fate during tumour suppression

John P. Morris et al.

NATURE (2019)

Review Biochemistry & Molecular Biology

Cellular Senescence: Defining a Path Forward

Vassilis Gorgoulis et al.

Review Cell & Tissue Engineering

Phenotypic Plasticity: Driver of Cancer Initiation, Progression, and Therapy Resistance

Piyush B. Gupta et al.

CELL STEM CELL (2019)

Editorial Material Oncology

The Tumor Microbiome in Pancreatic Cancer: Bacteria and Beyond

Florencia McAllister et al.

CANCER CELL (2019)

Review Cell Biology

The dynamic nature of senescence in cancer

Soyoung Lee et al.

NATURE CELL BIOLOGY (2019)

Review Oncology

Unmasking senescence: context-dependent effects of SASP in cancer

Douglas V. Faget et al.

NATURE REVIEWS CANCER (2019)

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Biological Role and Therapeutic Potential of IDH Mutations in Cancer

Matthew S. Waitkus et al.

CANCER CELL (2018)

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The Influence of the Gut Microbiome on Cancer, Immunity, and Cancer Immunotherapy

Vancheswaran Gopalakrishnan et al.

CANCER CELL (2018)

Article Biochemistry & Molecular Biology

Machine Learning Identifies Stemness Features Associated with Oncogenic Dedifferentiation

Tathiane M. Malta et al.

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Mechanisms and impact of altered tumour mechanics

Hamid Mohammadi et al.

NATURE CELL BIOLOGY (2018)

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The microbiome in cancer immunotherapy: Diagnostic tools and therapeutic strategies

Laurence Zitvogel et al.

SCIENCE (2018)

Review Genetics & Heredity

Cancer epigenetics: Moving forward

Angela Nebbioso et al.

PLOS GENETICS (2018)

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A cell identity switch allows residual BCC to survive Hedgehog pathway inhibition

Brian Biehs et al.

NATURE (2018)

Article Multidisciplinary Sciences

The chromatin accessibility landscape of primary human cancers

M. Ryan Corces et al.

SCIENCE (2018)

Article Cell Biology

Pan-Cancer Landscape of Aberrant DNA Methylation across Human Tumors

Sadegh Saghafinia et al.

CELL REPORTS (2018)

Review Oncology

Differentiation therapy revisited

Hugues de The

NATURE REVIEWS CANCER (2018)

Review Multidisciplinary Sciences

Epigenetic plasticity and the hallmarks of cancer

William A. Flavahan et al.

SCIENCE (2017)

Review Genetics & Heredity

Epithelial-to-Mesenchymal Transition: Epigenetic Reprogramming Driving Cellular Plasticity

Nicolas Skrypek et al.

TRENDS IN GENETICS (2017)

Review Biochemistry & Molecular Biology

Epigenetic regulation and chromatin remodeling in learning and memory

Somi Kim et al.

EXPERIMENTAL AND MOLECULAR MEDICINE (2017)

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Direct reprogramming with SOX factors: masters of cell fate

Lisa M. Julian et al.

CURRENT OPINION IN GENETICS & DEVELOPMENT (2017)

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Senescence in Health and Disease

Shenghui He et al.

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MIST1 and PTF1 Collaborate in Feed-Forward Regulatory Loops That Maintain the Pancreatic Acinar Phenotype in Adult Mice

Mei Jiang et al.

MOLECULAR AND CELLULAR BIOLOGY (2016)

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Regulation of epithelial-mesenchymal transition through epigenetic and post-translational modifications

Silvia Juliana Serrano-Gomez et al.

MOLECULAR CANCER (2016)

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Naturally occurring p16Ink4a-positive cells shorten healthy lifespan

Darren J. Baker et al.

NATURE (2016)

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Targeting the cancer epigenome for therapy

Peter A. Jones et al.

NATURE REVIEWS GENETICS (2016)

Review Cell Biology

Adult cell plasticity in vivo: de-differentiation and transdifferentiation are back in style

Allyson J. Merrell et al.

NATURE REVIEWS MOLECULAR CELL BIOLOGY (2016)

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The linker histone H1.0 generates epigenetic and functional intratumor heterogeneity

Cristina Morales Torres et al.

SCIENCE (2016)

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Histone Modifications and Cancer

James E. Audia et al.

COLD SPRING HARBOR PERSPECTIVES IN BIOLOGY (2016)

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Epigenetic Determinants of Cancer

Stephen B. Baylin et al.

COLD SPRING HARBOR PERSPECTIVES IN BIOLOGY (2016)

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Stromal senescence establishes an immunosuppressive microenvironment that drives tumorigenesis

Megan K. Ruhland et al.

NATURE COMMUNICATIONS (2016)

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A Transcriptionally Inactive ATF2 Variant Drives Melanomagenesis

Giuseppina Claps et al.

CELL REPORTS (2016)

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Epigenomic analysis detects aberrant super-enhancer DNA methylation in human cancer

Holger Heyn et al.

GENOME BIOLOGY (2016)

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Tumors smother their epigenome

Bernard Thienpont et al.

MOLECULAR & CELLULAR ONCOLOGY (2016)

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Microbes, Microbiota, and Colon Cancer

Cynthia L. Sears et al.

CELL HOST & MICROBE (2014)

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Dynamics and associations of microbial community types across the human body

Tao Ding et al.

NATURE (2014)

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Hijacking the Neuronal NMDAR Signaling Circuit to Promote Tumor Growth and Invasion

Leanne Li et al.

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Tumor progression: Chance and necessity in Darwinian and Lamarckian somatic (mutationless) evolution

Sui Huang

PROGRESS IN BIOPHYSICS & MOLECULAR BIOLOGY (2012)

Review Biochemistry & Molecular Biology

Hallmarks of Cancer: The Next Generation

Douglas Hanahan et al.

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A Role for ATF2 in Regulating MITF and Melanoma Development

Meera Shah et al.

PLOS GENETICS (2010)

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Crypt stem cells as the cells-of-origin of intestinal cancer

Nick Barker et al.

NATURE (2009)

Article Medicine, General & Internal

Inhibition of the Hedgehog Pathway in Advanced Basal-Cell Carcinoma.

Daniel D. Von Hoff et al.

NEW ENGLAND JOURNAL OF MEDICINE (2009)

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Epigenetics: A landscape takes shape

Aaron D. Goldberg et al.

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Top-down morphogenesis of colorectal tumors

LM Shih et al.

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Review Biochemistry & Molecular Biology

The hallmarks of cancer

D Hanahan et al.