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Article ; Online: Viruses in the Nucleus.

Lucic, Bojana / de Castro, Ines J / Lusic, Marina

Cold Spring Harbor perspectives in biology

2021 Volume 13, Issue 8

Abstract: Viral infection is intrinsically linked to the capacity of the virus to generate progeny. Many DNA and some RNA viruses need to access the nuclear machinery and therefore transverse the nuclear envelope barrier through the nuclear pore complex. Viral ... ...

Abstract	Viral infection is intrinsically linked to the capacity of the virus to generate progeny. Many DNA and some RNA viruses need to access the nuclear machinery and therefore transverse the nuclear envelope barrier through the nuclear pore complex. Viral genomes then become chromatinized either in their episomal form or upon integration into the host genome. Interactions with host DNA, transcription factors or nuclear bodies mediate their replication. Often interfering with nuclear functions, viruses use nuclear architecture to ensure persistent infections. Discovering these multiple modes of replication and persistence served in unraveling many important nuclear processes, such as nuclear trafficking, transcription, and splicing. Here, by using examples of DNA and RNA viral families, we portray the nucleus with the virus inside.
MeSH term(s)	Animals ; Cell Nucleus/physiology ; Cell Nucleus/virology ; DNA Viruses/physiology ; Gene Expression Regulation, Viral ; Humans ; RNA Viruses/physiology ; Virus Integration
Language	English
Publishing date	2021-08-02
Publishing country	United States
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ISSN	1943-0264
ISSN (online)	1943-0264
DOI	10.1101/cshperspect.a039446
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Article ; Online: Brachybacterium atlanticum

de Castro, Inês / Ribeiro, Susana / Oliveira, Vanessa / Coelho, Francisco J R C / de Lurdes Dapkevicius, Maria / de Azevedo, Eduardo Brito / Barcelos E Ramos, Joana

International journal of systematic and evolutionary microbiology

2023 Volume 73, Issue 8

Abstract: A bacterial strain, ... ...

Abstract	A bacterial strain, PhyBa_CO2_2
MeSH term(s)	Fatty Acids/chemistry ; RNA, Ribosomal, 16S/genetics ; Carbon Dioxide ; Sequence Analysis, DNA ; DNA, Bacterial/genetics ; Base Composition ; Phylogeny ; Bacterial Typing Techniques ; Actinomycetales ; Phospholipids/chemistry ; Vitamin K 2/chemistry
Chemical Substances	Fatty Acids ; RNA, Ribosomal, 16S ; Carbon Dioxide (142M471B3J) ; DNA, Bacterial ; Phospholipids ; Vitamin K 2 (11032-49-8)
Language	English
Publishing date	2023-08-04
Publishing country	England
Document type	Journal Article
ZDB-ID	2002336-4
ISSN	1466-5034 ; 1466-5026
ISSN (online)	1466-5034
ISSN	1466-5026
DOI	10.1099/ijsem.0.005959
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Article: Phytochemical Profiles and Biological Studies of Selected Botanical Dietary Supplements Used in the United States.

Salinas-Arellano, Eric D / Castro-Dionicio, Ines Y / Jeyaraj, Jonathan G / Mirtallo Ezzone, Nathan P / Carcache de Blanco, Esperanza J

Progress in the chemistry of organic natural products

2023 Volume 122, Page(s) 1–162

Abstract: Based on their current wide bioavailability, botanical dietary supplements have become an important component of the United States healthcare system, although most of these products have limited scientific evidence for their use. The most recent American ...

Abstract	Based on their current wide bioavailability, botanical dietary supplements have become an important component of the United States healthcare system, although most of these products have limited scientific evidence for their use. The most recent American Botanical Council Market Report estimated for 2020 a 17.3% increase in sales of these products when compared to 2019, for a total sales volume of $11,261 billion. The use of botanical dietary supplements products in the United States is guided by the Dietary Supplement Health and Education Act (DSHEA) from 1994, enacted by the U.S. Congress with the aim of providing more information to consumers and to facilitate access to a larger number of botanical dietary supplements available on the market than previously. Botanical dietary supplements may be formulated for and use only using crude plant samples (e.g., plant parts such as the bark, leaves, or roots) that can be processed by grinding into a dried powder. Plant parts can also be extracted with hot water to form an "herbal tea." Other preparations of botanical dietary supplements include capsules, essential oils, gummies, powders, tablets, and tinctures. Overall, botanical dietary supplements contain bioactive secondary metabolites with diverse chemotypes that typically are found at low concentration levels. These bioactive constituents usually occur in combination with inactive molecules that may induce synergy and potentiation of the effects observed when botanical dietary supplements are taken in their different forms. Most of the botanical dietary supplements available on the U.S. market have been used previously as herbal remedies or as part of traditional medicine systems from around the world. Their prior use in these systems also provides a certain level of assurance in regard to lower toxicity levels. This chapter will focus on the importance and diversity of the chemical features of bioactive secondary metabolites found in botanical dietary supplements that are responsible for their applications. Many of the active principles of botanical dietary substances are phenolics and isoprenoids, but glycosides and some alkaloids are also present. Biological studies on the active constituents of selected botanical dietary supplements will be discussed. Thus, the present chapter should be of interest for both members of the natural products scientific community, who may be performing development studies of the products available, as well as for healthcare professionals who are directly involved in the analysis of botanical interactions and evaluation of the suitability of botanical dietary supplements for human consumption.
MeSH term(s)	Humans ; Dietary Supplements ; Phytochemicals/pharmacology ; Oils, Volatile ; Biological Availability ; Biological Products ; Powders
Chemical Substances	Phytochemicals ; Oils, Volatile ; Biological Products ; Powders
Language	English
Publishing date	2023-07-03
Publishing country	Austria
Document type	Journal Article
ZDB-ID	2669837-7
ISSN	2192-4309 ; 2191-7043
ISSN (online)	2192-4309
ISSN	2191-7043
DOI	10.1007/978-3-031-26768-0_1
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Article ; Online: Navigating through the nucleus with a virus.

J de Castro, Ines / Lusic, Marina

Current opinion in genetics & development

2019 Volume 55, Page(s) 100–105

Abstract: In each cell, the hierarchical organisation of the ∼2m DNA fibre ensures different nuclear functions, particularly proper gene expression. Chromosomes are non-randomly positioned occupying specific chromosome territories in the 3D nuclear space and ... ...

Abstract	In each cell, the hierarchical organisation of the ∼2m DNA fibre ensures different nuclear functions, particularly proper gene expression. Chromosomes are non-randomly positioned occupying specific chromosome territories in the 3D nuclear space and circumventing several nuclear landmarks the Nuclear Envelope with embedded Nuclear Pore Complexes, Splicing Speckles, PML bodies and many others. At a higher level of organisation, similarly regulated chromatin regions cluster together in so called Topologically Associated Domains, TADs, while on a smaller scale, DNA sequences wrapped around histones dictate binding of transcription factors or inhibitors that determine the level of chromatin compaction. As intracellular pathogens, viruses explore different cellular structures and functions to either promote their lytic infection or control the latent state of their replication cycles. Here we highlight the most recent discoveries on how different levels of nuclear architecture and genome are exploited by various human viruses.
MeSH term(s)	Animals ; Cell Compartmentation ; Cell Nucleus/genetics ; Cell Nucleus/virology ; Chromatin/genetics ; Chromatin/metabolism ; Chromosomes/genetics ; Chromosomes/metabolism ; Humans ; Nuclear Proteins/genetics ; Nuclear Proteins/metabolism ; Viruses/growth & development
Chemical Substances	Chromatin ; Nuclear Proteins
Language	English
Publishing date	2019-08-31
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	1077312-5
ISSN	1879-0380 ; 0959-437X
ISSN (online)	1879-0380
ISSN	0959-437X
DOI	10.1016/j.gde.2019.07.001
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Zs.A 3240: Show issues

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Article ; Online: The mediating role of posttraumatic stress symptoms on somatization in adolescents: A two-wave longitudinal study.

Pinto, Ricardo J / Vieira de Castro, Maria / Correia-Santos, Patrícia / Jongenelen, Inês / Maia, Ângela C / Levendosky, Alytia

Psychological trauma : theory, research, practice and policy

2022 Volume 15, Issue Suppl 1, Page(s) S47–S54

Abstract: Objective: Trauma as well as adverse childhood experiences (ACEs) have been associated with increased rates of later somatization symptoms. Some evidence has proposed that posttraumatic stress symptoms (PTSS) can mediate this relationship. However, most ...

Abstract	Objective: Trauma as well as adverse childhood experiences (ACEs) have been associated with increased rates of later somatization symptoms. Some evidence has proposed that posttraumatic stress symptoms (PTSS) can mediate this relationship. However, most data come from adult samples. This two-wave longitudinal study aimed to investigate the relationship between cumulative adversity (total amount of adverse and traumatic experiences), PTSS and somatization symptoms in adolescents. Method: The sample included 150 adolescents, mean age of 16 years old ( Results: The results showed that the PTSS Cluster E, alterations in arousal and reactivity, partially mediated the relationship between cumulative adversity and somatization symptoms (B = .09, BSE = .03, CI [.01, .15]). However, the effect size of the mediation was medium, while the direct effect was large (B = .34, BSE = .08, CI [.18, .50]). Conclusions: While arousal and reactivity symptoms seem to play a key role in adolescents suffering from somatization symptoms, cumulative adversity have their own direct and strong contribution. Clinicians should consider assessing PTSS and cumulative adversity when caring for adolescents suffering with somatic symptoms to better deliver intervention plans. (PsycInfo Database Record (c) 2023 APA, all rights reserved).
MeSH term(s)	Adult ; Male ; Female ; Humans ; Adolescent ; Stress Disorders, Post-Traumatic/diagnosis ; Longitudinal Studies ; Anxiety ; Medically Unexplained Symptoms ; Adverse Childhood Experiences
Language	English
Publishing date	2022-07-28
Publishing country	United States
Document type	Journal Article
ZDB-ID	2497028-1
ISSN	1942-969X ; 1942-9681
ISSN (online)	1942-969X
ISSN	1942-9681
DOI	10.1037/tra0001331
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Article ; Online: Non-redundant functions of H2A.Z.1 and H2A.Z.2 in chromosome segregation and cell cycle progression.

Sales-Gil, Raquel / Kommer, Dorothee C / de Castro, Ines J / Amin, Hasnat A / Vinciotti, Veronica / Sisu, Cristina / Vagnarelli, Paola

EMBO reports

2021 Volume 22, Issue 11, Page(s) e52061

Abstract: H2A.Z is a H2A-type histone variant essential for many aspects of cell biology, ranging from gene expression to genome stability. From deuterostomes, H2A.Z evolved into two paralogues, H2A.Z.1 and H2A.Z.2, that differ by only three amino acids and are ... ...

Abstract	H2A.Z is a H2A-type histone variant essential for many aspects of cell biology, ranging from gene expression to genome stability. From deuterostomes, H2A.Z evolved into two paralogues, H2A.Z.1 and H2A.Z.2, that differ by only three amino acids and are encoded by different genes (H2AFZ and H2AFV, respectively). Despite the importance of this histone variant in development and cellular homeostasis, very little is known about the individual functions of each paralogue in mammals. Here, we have investigated the distinct roles of the two paralogues in cell cycle regulation and unveiled non-redundant functions for H2A.Z.1 and H2A.Z.2 in cell division. Our findings show that H2A.Z.1 regulates the expression of cell cycle genes such as Myc and Ki-67 and its depletion leads to a G1 arrest and cellular senescence. On the contrary, H2A.Z.2, in a transcription-independent manner, is essential for centromere integrity and sister chromatid cohesion regulation, thus playing a key role in chromosome segregation.
MeSH term(s)	Animals ; Centromere/metabolism ; Chromosome Segregation ; Genomic Instability ; Histones/genetics ; Histones/metabolism
Chemical Substances	Histones
Language	English
Publishing date	2021-08-23
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't
ZDB-ID	2020896-0
ISSN	1469-3178 ; 1469-221X
ISSN (online)	1469-3178
ISSN	1469-221X
DOI	10.15252/embr.202052061
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Zs.A 5433: Show issues			Location: Je nach Verfügbarkeit (siehe Angabe bei Bestand) bis Jg. 1994: Bestellungen von Artikeln über das Online-Bestellformular Jg. 1995 - 2021: Lesesall (2.OG) ab Jg. 2022: Lesesaal (EG)
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Article ; Online: Resetting a functional G1 nucleus after mitosis.

de Castro, Ines J / Gokhan, Ezgi / Vagnarelli, Paola

Chromosoma

2016 Volume 125, Issue 4, Page(s) 607–619

Abstract: The maintenance of the correct cellular information goes beyond the simple transmission of an intact genetic code from one generation to the next. Epigenetic changes, topological cues and correct protein-protein interactions need to be re-established ... ...

Abstract	The maintenance of the correct cellular information goes beyond the simple transmission of an intact genetic code from one generation to the next. Epigenetic changes, topological cues and correct protein-protein interactions need to be re-established after each cell division to allow the next cell cycle to resume in the correct regulated manner. This process begins with mitotic exit and re-sets all the changes that occurred during mitosis thus restoring a functional G1 nucleus in preparation for the next cell cycle. Mitotic exit is triggered by inactivation of mitotic kinases and the reversal of their phosphorylation activities on many cellular components, from nuclear lamina to transcription factors and chromatin itself. To reverse all these phosphorylations, phosphatases act during mitotic exit in a timely and spatially controlled manner directing the events that lead to a functional G1 nucleus. In this review, we will summarise the recent developments on the control of phosphatases and their known substrates during mitotic exit, and the key steps that control the restoration of chromatin status, nuclear envelope reassembly and nuclear body re-organisation. Although pivotal work has been conducted in this area in yeast, due to differences between the mitotic exit network between yeast and vertebrates, we will mainly concentrate on the vertebrate system.
MeSH term(s)	Cell Nucleus/metabolism ; Chromatin/metabolism ; Epigenesis, Genetic/genetics ; G1 Phase/physiology ; Humans ; Mitosis/physiology ; Phosphoric Monoester Hydrolases/metabolism ; Protein Processing, Post-Translational/physiology ; Transcription, Genetic ; Yeasts/metabolism
Chemical Substances	Chromatin ; Phosphoric Monoester Hydrolases (EC 3.1.3.2)
Language	English
Publishing date	2016
Publishing country	Austria
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	203083-4
ISSN	1432-0886 ; 0009-5915
ISSN (online)	1432-0886
ISSN	0009-5915
DOI	10.1007/s00412-015-0561-6
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Article ; Online: CDK1 and PLK1 coordinate the disassembly and reassembly of the nuclear envelope in vertebrate mitosis.

de Castro, Ines J / Gil, Raquel Sales / Ligammari, Lorena / Di Giacinto, Maria Laura / Vagnarelli, Paola

Oncotarget

2018 Volume 9, Issue 8, Page(s) 7763–7773

Abstract: Micronuclei (MN) arise from chromosomes or fragments that fail to be incorporated into the primary nucleus after cell division. These structures are a major source of genetic instability caused by DNA repair and replication defects coupled to aberrant ... ...

Abstract	Micronuclei (MN) arise from chromosomes or fragments that fail to be incorporated into the primary nucleus after cell division. These structures are a major source of genetic instability caused by DNA repair and replication defects coupled to aberrant Nuclear Envelope (NE). These problems ultimately lead to a spectrum of chromosome rearrangements called chromothripsis, a phenomenon that is a hallmark of several cancers. Despite its importance, the molecular mechanism at the origin of this instability is still not understood. Here we show that lagging chromatin, although it can efficiently assemble Lamin A/C, always fails to recruit Nuclear Pore Complexes (NPCs) proteins and that Polo-Like Kinase (PLK1) negatively regulates NPC assembly. We also provide evidence for the requirement of PLK1 activity for the disassembly of NPCs, but not Lamina A/C, at mitotic entry. Altogether this study reveals the existence of independent regulatory pathways for Lamin A/C and NPC reorganization during mitosis where Lamin A/C targeting to the chromatin is controlled by CDK1 activity (a clock-based model) while the NPC loading is also spatially monitored by PLK1.
Language	English
Publishing date	2018-01-30
Publishing country	United States
Document type	Journal Article
ZDB-ID	2560162-3
ISSN	1949-2553 ; 1949-2553
ISSN (online)	1949-2553
ISSN	1949-2553
DOI	10.18632/oncotarget.23666
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Article ; Online: Altered nuclear architecture in blood cells from Huntington's disease patients.

de Castro, Inês J / Toner, Brian / Xie, Sheila Q / Swingland, James / Hodges, Angela / Tabrizi, Sarah J / Turkheimer, Federico / Pombo, Ana / Khalil, André

Neurological sciences : official journal of the Italian Neurological Society and of the Italian Society of Clinical Neurophysiology

2021 Volume 43, Issue 1, Page(s) 379–385

Abstract: Background: Cell nuclear architecture has been explored in cancer and laminopathies but not in neurodegenerative disorders. Huntington's disease (HD) is a neurodegenerative disorder that leads to neuronal death. Chromosome-wide changes in gene ... ...

Abstract	Background: Cell nuclear architecture has been explored in cancer and laminopathies but not in neurodegenerative disorders. Huntington's disease (HD) is a neurodegenerative disorder that leads to neuronal death. Chromosome-wide changes in gene expression have been reported in HD, not only in the brain but also in peripheral blood cells, but whether this translates into nuclear and chromosome architecture alterations has not yet been studied. Methods: We investigate nuclear structure and chromosome organization in HD blood cells using fluorescence in situ hybridization in ultrathin cryosections (cryoFISH), coupled with machine learning image analysis to evaluate size, distribution, and morphology of nuclei and chromosomes. Four chromosomes were analyzed based on up- or downregulation of gene expression in HD. Results: We show that blood cells from HD patients display increased nuclear size and filamentary shape, increased size of gene-rich chromosome 19, decreased filamentary shape of gene-rich chromosome 22, and a more radially centralized position for chromosome 19, whereas chromosomes 4 and 5 do not show detectable differences. Conclusions: We identify gross changes in nuclear architecture and chromosome organization associated with HD in blood. This adds a new layer of information onto disrupting mechanisms in HD and increases the potential of using blood to survey HD.
MeSH term(s)	Blood Cells ; Brain ; Gene Expression ; Humans ; Huntington Disease/genetics ; In Situ Hybridization, Fluorescence
Language	English
Publishing date	2021-05-11
Publishing country	Italy
Document type	Journal Article
ZDB-ID	2016546-8
ISSN	1590-3478 ; 1590-1874
ISSN (online)	1590-3478
ISSN	1590-1874
DOI	10.1007/s10072-021-05289-w
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Zs.A 1877: Show issues

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Article ; Online: Protein phosphatases at the nuclear envelope.

Sales Gil, Raquel / de Castro, Ines J / Berihun, Jerusalem / Vagnarelli, Paola

Biochemical Society transactions

2018 Volume 46, Issue 1, Page(s) 173–182

Abstract: The nuclear envelope (NE) is a unique topological structure formed by lipid membranes (Inner and Outer Membrane: IM and OM) interrupted by open channels (Nuclear Pore complexes). Besides its well-established structural role in providing a physical ... ...

Abstract	The nuclear envelope (NE) is a unique topological structure formed by lipid membranes (Inner and Outer Membrane: IM and OM) interrupted by open channels (Nuclear Pore complexes). Besides its well-established structural role in providing a physical separation between the genome and the cytoplasm and regulating the exchanges between the two cellular compartments, it has become quite evident in recent years that the NE also represents a hub for localized signal transduction. Mechanical, stress, or mitogen signals reach the nucleus and trigger the activation of several pathways, many effectors of which are processed at the NE. Therefore, the concept of the NE acting just as a barrier needs to be expanded to embrace all the dynamic processes that are indeed associated with it. In this context, dynamic protein association and turnover coupled to reversible post-translational modifications of NE components can provide important clues on how this integrated cellular machinery functions as a whole. Reversible protein phosphorylation is the most used mechanism to control protein dynamics and association in cells. Keys to the reversibility of the system are protein phosphatases and the regulation of their activity in space and time. As the NE is clearly becoming an interesting compartment for the control and transduction of several signalling pathways, in this review we will focus on the role of Protein Phosphatases at the NE since the significance of this class of proteins in this context has been little explored.
MeSH term(s)	Cell Nucleus/metabolism ; Cytoplasm/metabolism ; Humans ; Nuclear Envelope/enzymology ; Phosphoprotein Phosphatases/metabolism ; Phosphorylation ; Protein Processing, Post-Translational ; Signal Transduction
Chemical Substances	Phosphoprotein Phosphatases (EC 3.1.3.16)
Language	English
Publishing date	2018-02-06
Publishing country	England
Document type	Journal Article ; Research Support, Non-U.S. Gov't ; Review
ZDB-ID	184237-7
ISSN	1470-8752 ; 0300-5127
ISSN (online)	1470-8752
ISSN	0300-5127
DOI	10.1042/BST20170139
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