Caterina Manzari
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View article: Differential pituitary mRNA expression in wild and hatchery-produced greater amberjack Seriola dumerili exhibiting normal and impaired spermatogenesis
Differential pituitary mRNA expression in wild and hatchery-produced greater amberjack Seriola dumerili exhibiting normal and impaired spermatogenesis Open
The greater amberjack Seriola dumerili is a promising aquaculture species in the Mediterranean Sea. However, first generation (F1) hatchery-produced individuals exhibit reproductive dysfunctions when reared in tanks or in cages. As part of…
View article: Transcriptomic profile of cumulus cells isolated from cumulus-oocyte complexes of prepubertal and adult sheep
Transcriptomic profile of cumulus cells isolated from cumulus-oocyte complexes of prepubertal and adult sheep Open
Cumulus cells (CCs) are crucial during cumulus-oocyte complex (COC) growth, maturation and fertilization. Analysis of gene expression in CCs of in vitro matured oocytes help to identify non-invasive biomarkers of oocyte quality. This study…
View article: A new systemic approach for promoting soil and plant health in <i>Actinidia chinensis</i> var. <i>chinensis</i> orchards to face kiwifruit vine decline syndrome (KVDS)
A new systemic approach for promoting soil and plant health in <i>Actinidia chinensis</i> var. <i>chinensis</i> orchards to face kiwifruit vine decline syndrome (KVDS) Open
Italy, the third largest producer of kiwifruit in the world, lost 30% of its production in recent years because of the spread of the kiwifruit vine decline syndrome (KVDS). Although the etiology of KVDS is still not clear, it is often asso…
View article: De Novo Assembly of the Polyhydroxybutyrate (PHB) Producer Azohydromonas lata Strain H1 Genome and Genomic Analysis of PHB Production Machinery
De Novo Assembly of the Polyhydroxybutyrate (PHB) Producer Azohydromonas lata Strain H1 Genome and Genomic Analysis of PHB Production Machinery Open
Polyhydroxybutyrate (PHB) is a biodegradable natural polymer produced by different prokaryotes as a valuable carbon and energy storage compound. Its biosynthesis pathway requires the sole expression of the phaCAB operon, although auxiliary…
View article: Genomic diversity in time and space in the toxic diatom Pseudo-nitzschia multistriata
Genomic diversity in time and space in the toxic diatom Pseudo-nitzschia multistriata Open
Understanding the origin and maintenance of genetic diversity is crucial to elucidate population dynamics of unicellular microalgae, their microevolutionary history and their adaptive ability. The planktonic, domoic acid-producing diatom P…
View article: De Novo Assembly of the Polyhydroxybutyrate (Phb) Producer Azohydromonas lata Strain H1 Genome and Genomic Analysis of Phb Production Machinery
De Novo Assembly of the Polyhydroxybutyrate (Phb) Producer Azohydromonas lata Strain H1 Genome and Genomic Analysis of Phb Production Machinery Open
Polyhydroxybutyrate (PHB) is a biodegradable natural polymer produced by different prokaryotes as a valuable carbon and energy storage compound. Its biosynthesis pathway requires the sole expression of the phaCAB operon, although auxiliary…
View article: Comparison of ovarian mRNA expression levels in wild and hatchery-produced greater amberjack Seriola dumerili
Comparison of ovarian mRNA expression levels in wild and hatchery-produced greater amberjack Seriola dumerili Open
The greater amberjack Seriola dumerili is a promising candidate for aquaculture production. This study compares the ovary transcriptome of greater amberjack sampled in the wild (WILD) with hatchery-produced breeders reared in aquaculture s…
View article: Detection of ribonucleotides embedded in DNA by Nanopore sequencing
Detection of ribonucleotides embedded in DNA by Nanopore sequencing Open
Ribonucleotides represent the most common non-canonical nucleotides found in eukaryotic genomes. The sources of chromosome-embedded ribonucleotides and the mechanisms by which unrepaired rNMPs trigger genome instability and human pathologi…
View article: Unraveling C-to-U RNA editing events from direct RNA sequencing
Unraveling C-to-U RNA editing events from direct RNA sequencing Open
In mammals, RNA editing events involve the conversion of adenosine (A) in inosine (I) by ADAR enzymes or the hydrolytic deamination of cytosine (C) in uracil (U) by the APOBEC family of enzymes, mostly APOBEC1. RNA editing has a plethora o…
View article: Chitinolytic Enzymes of the Hyperparasite Fungus Aphanocladium album: Genome-Wide Survey and Characterization of A Selected Enzyme
Chitinolytic Enzymes of the Hyperparasite Fungus Aphanocladium album: Genome-Wide Survey and Characterization of A Selected Enzyme Open
The filamentous fungus Aphanocladium album is known as a hyperparasite of plant pathogenic fungi; hence, it has been studied as a possible agent for plant protection. Chitinases secreted by A. album have proven to be essential for its fung…
View article: Unraveling C-to-U RNA editing events from direct RNA sequencing
Unraveling C-to-U RNA editing events from direct RNA sequencing Open
In mammals, RNA editing events involve the conversion of adenosine (A) in inosine (I) by ADAR enzymes or the hydrolytic deamination of cytosine (C) in uracil (U) by the APOBEC family of enzymes, mostly APOBEC1. RNA editing has a plethora o…
View article: Natural and after colon washing fecal samples: the two sides of the coin for investigating the human gut microbiome
Natural and after colon washing fecal samples: the two sides of the coin for investigating the human gut microbiome Open
To date several studies address the important role of gut microbiome and its interplay with the human host in the health and disease status. However, the selection of a universal sampling matrix representative of the microbial biodiversity…
View article: Mitofusin 2 mutation drives cell proliferation in Charcot-Marie-Tooth 2A fibroblasts
Mitofusin 2 mutation drives cell proliferation in Charcot-Marie-Tooth 2A fibroblasts Open
Dominant mutations in ubiquitously expressed mitofusin 2 gene (MFN2) cause Charcot-Marie-Tooth type 2A (CMT2A; OMIM 609260), an inherited sensory-motor neuropathy that affects peripheral nerve axons. Mitofusin 2 protein has been found to t…
View article: Yeast as a Model to Unravel New BRCA2 Functions in Cell Metabolism
Yeast as a Model to Unravel New BRCA2 Functions in Cell Metabolism Open
Mutations in BRCA2 gene increase the risk for breast cancer and for other cancer types, including pancreatic and prostate cancer. Since its first identification as an oncosupressor in 1995, the best-characterized function of BRCA2 is in th…
View article: Persistent SARS-CoV-2 Infection in a Patient With Non-hodgkin Lymphoma: Intra-Host Genomic Diversity Analysis
Persistent SARS-CoV-2 Infection in a Patient With Non-hodgkin Lymphoma: Intra-Host Genomic Diversity Analysis Open
The severe acute respiratory syndrome coronavirus 2 (SARS-CoV-2) has caused a pandemic, threatening global public health. Several cases of persistent infection have been described, but there are few reports that compared the genetic variab…
View article: Dealing with the promise of metabarcoding in mega-event biomonitoring: EXPO2015 unedited data
Dealing with the promise of metabarcoding in mega-event biomonitoring: EXPO2015 unedited data Open
As human activities on our planet persist, causing widespread and irreversible environmental degradation, the need to biomonitor ecosystems has never been more pressing. These circumstances have required a renewal in monitoring techniques,…
View article: Identification of an Amylomaltase from the Halophilic Archaeon Haloquadratum walsbyi by Functional Metagenomics: Structural and Functional Insights
Identification of an Amylomaltase from the Halophilic Archaeon Haloquadratum walsbyi by Functional Metagenomics: Structural and Functional Insights Open
Amylomaltases are prokaryotic 4-α-glucanotransferases of the GH77 family. Thanks to the ability to modify starch, they constitute a group of enzymes of great interest for biotechnological applications. In this work we report the identifica…
View article: Additional file 4 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance
Additional file 4 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance Open
Additional file 4: Supplementary Table S4. Total number of genera and species of yeasts detected in the eight spontaneous sourdoughs by shotgun metagenome analysis.
View article: Additional file 13 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance
Additional file 13 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance Open
Additional file 13: Supplementary Table S11. Statistically significant VOCs in SDGlobal and SMC-SD43. VOC standardized abundance whole matrices were used to compute a Welch corrected test (Benjamini–Hochberg). Mean rel. freq. = mean relati…
View article: Additional file 8 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance
Additional file 8 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance Open
Additional file 8: Supplementary Table S7. Shared and unique KEGG genes from metagenomes in the eight spontaneous sourdoughs.
View article: Additional file 6 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance
Additional file 6 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance Open
Additional file 6: Supplementary Table S5. Total number of mapped reads in the eight spontaneous sourdoughs by metatranscriptomics analysis.
View article: Additional file 3 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance
Additional file 3 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance Open
Additional file 3: Supplementary Table S3. Total number of genera and species of bacteria detected in the eight spontaneous sourdoughs by shotgun metagenomics.
View article: Additional file 11 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance
Additional file 11 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance Open
Additional file 11: Supplementary Table S9. Core and accessory genes encoding the enzymatic portfolio related to protein/peptide degradation in the eight spontaneous sourdoughs as estimated by metagenomic analyses.
View article: Additional file 12 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance
Additional file 12 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance Open
Additional file 12: Supplementary Table S10. Distribution of genes encoding the catabolism of branched chain amino acids (BCAAs), aromatic amino acids (ArAAs) and free amino acids. The expressed genes, evaluated through metatranscriptomic …
View article: Additional file 9 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance
Additional file 9 of Metabolic framework of spontaneous and synthetic sourdough metacommunities to reveal microbial players responsible for resilience and performance Open
Additional file 9: Supplementary Table S8. List of KEGG ID, gene name, function, transcript level (transcripts per million = TPM), copy number, total bases and coverage of each gene found in sourdough metagenomes.
View article: <i>VID22</i>counteracts G-quadruplex-induced genome instability
<i>VID22</i>counteracts G-quadruplex-induced genome instability Open
Genome instability is a condition characterized by the accumulation of genetic alterations and is a hallmark of cancer cells. To uncover new genes and cellular pathways affecting endogenous DNA damage and genome integrity, we exploited a S…