keyword
https://read.qxmd.com/read/38453889/targeting-metastasis-initiating-cancer-stem-cells-in-gastric-cancer-with-leukaemia-inhibitory-factor
#21
JOURNAL ARTICLE
Lornella Seeneevassen, Anissa Zaafour, Elodie Sifré, Coralie Genevois, Tra Ly Nguyen, Yasmine Pobiedonoscew, Alban Giese, Jérôme Guignard, Camille Tiffon, Benoit Rousseau, Anne-Aurélie Raymond, Geneviève Belleannée, Hélène Boeuf, Caroline Gronnier, Océane C B Martin, Julie Giraud, Philippe Lehours, Pierre Dubus, Christine Varon
Gastric cancer's (GC) bad prognosis is usually associated with metastatic spread. Invasive cancer stem cells (CSC) are considered to be the seed of GC metastasis and not all CSCs are able to initiate metastasis. Targeting these aggressive metastasis-initiating CSC (MIC) is thus vital. Leukaemia inhibitory factor (LIF) is hereby used to target Hippo pathway oncogenic members, found to be induced in GC and associated with CSC features. LIF-treated GC cell lines, patient-derived xenograft (PDX) cells and/or CSC tumourspheres underwent transcriptomics, laser microdissection-associated proteomics, 2D and 3D invasion assays and in vivo xenograft in mice blood circulation...
March 7, 2024: Cell Death Discovery
https://read.qxmd.com/read/38452852/paired-qualitative-and-quantitative-analysis-of-bacterial-microcolonies-in-the-tonsils-of-patients-with-tonsillar-hyperplasia
#22
JOURNAL ARTICLE
Jackson Teh, Kristi Biswas, Sharon Waldvogel-Thurlow, David Broderick, Sita Tarini Clark, James Johnston, Brett Wagner Mackenzie, Richard Douglas
The discovery of bacterial microcolonies in tonsillar tissue of patients with tonsillar hyperplasia has raised the question of their role in provoking the local immune response. Tonsils collected from patients undergoing tonsillectomy were stained for three clinically relevant bacterial taxa and lymphocytes. The bacterial composition and abundance of microcolonies was investigated using a combination of laser-microdissection, amplicon sequencing and Droplet Digital PCR polymerase chain reaction. Microcolonies were detected in most samples (32/35) with a high prevalence of Haemophilus influenzae (78% of samples)...
March 5, 2024: Microbes and Infection
https://read.qxmd.com/read/38451068/a-multistep-computational-approach-reveals-a-neuro-mesenchymal-cell-population-in-the-embryonic-hematopoietic-stem-cell-niche
#23
JOURNAL ARTICLE
Olivera Miladinovic, Pierre-Yves Canto, Claire Pouget, Olivier Piau, Nevenka Radic, Priscilla Freschu, Alexandre Megherbi, Carla Brujas Prats, Sebastien Jacques, Estelle Hirsinger, Audrey Geeverding, Sylvie Dufour, Laurence Petit, Michele Souyri, Trista North, Hervé Isambert, David Traver, Thierry Jaffredo, Pierre Charbord, Charles Durand
The first hematopoietic stem and progenitor cells (HSPCs) emerge in the Aorta-Gonad-Mesonephros (AGM) region of mid-gestation mouse embryo. However, the precise nature of their supportive mesenchymal microenvironment remains largely unexplored. Here, we profiled transcriptomes of laser micro-dissected aortic tissues at three developmental stages and individual AGM cells. Computational analyses allowed identifying several cell subpopulations within the embryonic day 11.5 AGM mesenchyme, with the remarkable presence of a yet unidentified subpopulation characterized by the dual expression of genes implicated in adhesive or neuronal functions...
March 7, 2024: Development
https://read.qxmd.com/read/38450191/cancer-cell-immunity-related-protein-co-expression-networks-are-associated-with-early-stage-solid-predominant-lung-adenocarcinoma
#24
JOURNAL ARTICLE
Toshihide Nishimura, Ákos Végvári, Haruhiko Nakamura, Kiyonaga Fujii, Hiroki Sakai, Saeko Naruki, Naoki Furuya, Hisashi Saji
BACKGROUND: Solid-predominant lung adenocarcinoma (SPA), which is one of the high-risk subtypes with poor prognosis and unsatisfactory response to chemotherapy and targeted therapy in lung adenocarcinoma, remains molecular profile unclarified. Weighted correlation network analysis (WGCNA) was used for data mining, especially for studying biological networks based on pairwise correlations between variables. This study aimed to identify disease-related protein co-expression networks associated with early-stage SPA...
2024: Frontiers in Oncology
https://read.qxmd.com/read/38447879/apolipoprotein-e-is-enriched-in-dense-deposits-and-is-a-marker-for-dense-deposit-disease-in-c3-glomerulopathy
#25
JOURNAL ARTICLE
Benjamin Madden, Raman Deep Singh, Mark Haas, Lilian Mp Palma, Alok Sharma, Maria J Vargas, LouAnn Gross, Vivian Negron, Torell Nate, M Cristine Charlesworth, Jason D Theis, Samih H Nasr, Karl A Nath, Fernando C Fervenza, Sanjeev Sethi
C3 glomerulopathy (C3G) is a rare disease resulting from dysregulation of the alternative pathway of complement. C3G includes C3 glomerulonephritis (C3GN) and dense deposit disease (DDD), both of which are characterized by bright glomerular C3 staining on immunofluorescence studies. However, on electron microscopy (EM), DDD is characterized by dense osmiophilic mesangial and intramembranous deposits along the glomerular basement membranes (GBM), while the deposits of C3GN are not dense. Why the deposits appear dense in DDD and not in C3GN is not known...
March 4, 2024: Kidney International
https://read.qxmd.com/read/38444675/precision-needle-punch-tumor-enrichment-from-paraffin-blocks-improves-the-detection-of-clinically-actionable-genomic-alterations-and-biomarkers
#26
JOURNAL ARTICLE
Douglas I Lin, Richard S P Huang, Ioannis Ladas, Rachel B Keller, Nimesh R Patel, Sotirios Lakis, Brennan Decker, Tyler Janovitz, Douglas A Mata, Jeffrey S Ross, Jo-Anne Vergilio, Julia A Elvin, Roy S Herbst, Philip C Mack, Jonathan K Killian
BACKGROUND: While many molecular assays can detect mutations at low tumor purity and variant allele frequencies, complex biomarkers such as tumor mutational burden (TMB), microsatellite instability (MSI), and genomic loss of heterozygosity (gLOH) require higher tumor purity for accurate measurement. Scalable, quality-controlled, tissue-conserving methods to increase tumor nuclei percentage (TN%) from tumor specimens are needed for complex biomarkers and hence necessary to maximize patient matching to approved therapies or clinical trial enrollment...
2024: Frontiers in Oncology
https://read.qxmd.com/read/38439970/proteomixture-a-cell-type-deconvolution-tool-for-bulk-tissue-proteomic-data
#27
JOURNAL ARTICLE
Pang-Ning Teng, Joshua P Schaaf, Tamara Abulez, Brian L Hood, Katlin N Wilson, Tracy J Litzi, David Mitchell, Kelly A Conrads, Allison L Hunt, Victoria Olowu, Julie Oliver, Fred S Park, Marshé Edwards, AiChun Chiang, Matthew D Wilkerson, Praveen-Kumar Raj-Kumar, Christopher M Tarney, Kathleen M Darcy, Neil T Phippen, G Larry Maxwell, Thomas P Conrads, Nicholas W Bateman
Numerous multi-omic investigations of cancer tissue have documented varying and poor pairwise transcript:protein quantitative correlations, and most deconvolution tools aiming to predict cell type proportions (cell admixture) have been developed and credentialed using transcript-level data alone. To estimate cell admixture using protein abundance data, we analyzed proteome and transcriptome data generated from contrived admixtures of tumor, stroma, and immune cell models or those selectively harvested from the tissue microenvironment by laser microdissection from high grade serous ovarian cancer (HGSOC) tumors...
March 15, 2024: IScience
https://read.qxmd.com/read/38439588/comparative-three-dimensional-jaw-muscle-anatomy-of-marsupial-carnivores-dasyurus-spp-and-the-termite-eating-numbat-myrmecobius-fasciatus
#28
JOURNAL ARTICLE
Vanessa J Thomas, Jeremy Shaw, Natasha Tay, Natalie M Warburton
Among marsupials, the endangered numbat (Myrmecobius fasciatus) is the only obligate myrmecophage with a diet comprised strictly of termites. Like many other specialised myrmecophagous mammals, numbats have a gracile and highly specialised skull morphology with an elongated rostrum and small braincase. Myrmecobiidae is one of four taxonomic families within the Australasian marsupial order Dasyuromorphia, and to date, the muscular anatomy of any member of this group is relatively poorly known. We utilised microdissection and contrast-enhanced microcomputed tomography scanning to provide the first comprehensive qualitative and quantitative descriptions of jaw muscle anatomy in numbats and quolls (Dasuyrus species)...
March 2024: Journal of Morphology
https://read.qxmd.com/read/38430325/achieving-an-optimal-pregnancy-outcome-through-the-combined-utilization-of-micro-tese-and-icsi-in-cryptorchidism-associated-with-a-non-canonical-splicing-variant-in-rxfp2
#29
JOURNAL ARTICLE
Lewen Ruan, Meng Gu, Hao Geng, Zongliu Duan, Hui Yu, Zhongmei Shao, Kuokuo Li, Mingrong Lv, Dongdong Tang
PURPOSE: To identify the genetic cause of a cryptorchidism patient carrying a non-canonical splicing variant highlighted by SPCards platform in RXFP2 and to provide a comprehensive overview of RXFP2 variants with cryptorchidism correlation. METHODS: We identified a homozygous non-canonical splicing variant by whole-exome sequencing and Sanger sequencing in a case with cryptorchidism and non-obstructive azoospermia (NOA). As the pathogenicity of this non-canonical splicing variant remained unclear, we initially utilized the SPCards platform to predict its pathogenicity...
March 2, 2024: Journal of Assisted Reproduction and Genetics
https://read.qxmd.com/read/38429092/rapid-microdissection-of-tissue-sections-via-laser-ablation
#30
JOURNAL ARTICLE
Robin Jn Coope, Stephen Pleasance, Pawan Pandoh, Colin Schlosser, Richard D Corbett, Marco A Marra
We demonstrate a method for tissue microdissection using scanning laser ablation that is approximately two orders of magnitude faster than conventional laser capture microdissection. Our novel approach uses scanning laser optics and a slide coating under the tissue that can be excited by the laser to selectively eject regions of tissue for further processing. Tissue was dissected at 0.117 s/mm2 without reduction in yield, sequencing insert size or base quality compared with undissected tissue. From eight cases, 58-416 mm2 of tissue was obtained from one to four slides in 7-48 seconds total dissection time per case...
March 1, 2024: Journal of Clinical Pathology
https://read.qxmd.com/read/38423745/utility-of-mr-neurography-for-the-evaluation-of-peripheral-trigeminal-neuropathies-in-the-postoperative-period
#31
JOURNAL ARTICLE
Tyler Thornton, Shuda Xia, John R Zuniga, Avneesh Chhabra
Peripheral trigeminal neuropathies are assessed by MR neurography for presurgical mapping. In this clinical report, we aimed to understand the utility of MR neurography following nerve-repair procedures. We hypothesized that postoperative MR neurography assists in determining nerve integrity, and worsening MR neurography findings will corroborate poor patient outcomes. Ten patients with peripheral trigeminal neuropathy were retrospectively identified after nerve-repair procedures, with postsurgical MR neurography performed from July 2015 to September 2023...
February 29, 2024: AJNR. American Journal of Neuroradiology
https://read.qxmd.com/read/38421140/a-detection-model-of-testis-derived-circular-rnas-in-serum-for-predicting-testicular-sperm-retrieval-rate-in-non-obstructive-azoospermia-patients
#32
JOURNAL ARTICLE
Mo-Qi Lv, Yan-Qi Yang, Yi-Xin Li, Liang Zhou, Pan Ge, Rui-Fang Sun, Jian Zhang, Jun-Cheng Gao, Liu-Qing Qu, Qi-Ya Jing, Pin-Cheng Li, Yu-Jia Yan, Hai-Xu Wang, He-Cheng Li, Dang-Xia Zhou
BACKGROUND: Microdissection testicular sperm extraction is an effective method to retrieve sperm from non-obstructive azoospermia patients. However, its successful rate is less than 50%. OBJECTIVES: To identify the predictive value of circular RNAs in serum for sperm retrieval rate in non-obstructive azoospermia patients. MATERIALS AND METHODS: 180 non-obstructive azoospermia patients were recruited in this study, including 84 individuals with successful sperm retrieval and 96 individuals with failed sperm retrieval...
February 29, 2024: Andrology
https://read.qxmd.com/read/38418601/heteromorphic-zz-zw-sex-chromosomes-sharing-gene-content-with-mammalian-xx-xy-are-conserved-in-madagascan-chameleons-of-the-genus-furcifer
#33
JOURNAL ARTICLE
Michail Rovatsos, Sofia Mazzoleni, Barbora Augstenová, Marie Altmanová, Petr Velenský, Frank Glaw, Antonio Sanchez, Lukáš Kratochvíl
Chameleons are well-known lizards with unique morphology and physiology, but their sex determination has remained poorly studied. Madagascan chameleons of the genus Furcifer have cytogenetically distinct Z and W sex chromosomes and occasionally Z1 Z1 Z2 Z2 /Z1 Z2 W multiple neo-sex chromosomes. To identify the gene content of their sex chromosomes, we microdissected and sequenced the sex chromosomes of F. oustaleti (ZZ/ZW) and F. pardalis (Z1 Z1 Z2 Z2 /Z1 Z2 W). In addition, we sequenced the genomes of a male and a female of F...
February 28, 2024: Scientific Reports
https://read.qxmd.com/read/38415231/comparison-of-sperm-retrieval-rate-between-superficial-and-deep-dissection-during-microscopic-testicular-sperm-extraction
#34
JOURNAL ARTICLE
Hammam Mandourah, Mohammad Alghafees, Hamed Alali, Shaheed Alsuhaibani, Eyad Gutub, Lama Aldosari, Turki Alhumaid, Said Kattan, Naif Alhathal
OBJECTIVE: The purpose of the study was to compare the outcome of microscopic testicular sperm extraction (micro-TESE) between superficial and deep dissection on the same testicle in terms of sperm retrieval rate (SRR). PATIENTS AND METHODS: In a retrospective study from June 2019 to October 2021, 44 patients with nonobstructive azoospermia who underwent micro-TESE with positive results (mature sperm identified) were included. Eight patients were excluded from the study due to deficient documentation on superficial and deep dissection...
2024: Urology Annals
https://read.qxmd.com/read/38413182/novel-tuba4a-variant-causes-congenital-myopathy-with-focal-myofibrillar-disorganisation
#35
JOURNAL ARTICLE
Yalan Wan, Chao Zhou, Xingzhi Chang, Liwen Wu, Yilei Zheng, Jiaxi Yu, Li Bai, Mingyue Luan, Meng Yu, Qi Wang, Wei Zhang, Yun Yuan, Jianwen Deng, Zhaoxia Wang
BACKGROUND: Congenital myopathies are a clinical, histopathological and genetic heterogeneous group of inherited muscle disorders that are defined on peculiar architectural abnormalities in the muscle fibres. Although there have been at least 33 different genetic causes of the disease, a significant percentage of congenital myopathies remain genetically unresolved. The present study aimed to report a novel TUBA4A variant in two unrelated Chinese patients with sporadic congenital myopathy...
February 27, 2024: Journal of Medical Genetics
https://read.qxmd.com/read/38407828/cell-type-specific-transcriptomics-uncovers-spatial-regulatory-networks-in-bioenergy-sorghum-stems
#36
JOURNAL ARTICLE
Jie Fu, Brian McKinley, Brandon James, William Chrisler, Lye Meng Markillie, Matthew J Gaffrey, Hugh D Mitchell, Muhammad Rizwan Riaz, Brenda Marcial, Galya Orr, Kankshita Swaminathan, John Mullet, Amy Marshall-Colon
Bioenergy sorghum is a low-input, drought-resilient, deep-rooting annual crop that has high biomass yield potential enabling the sustainable production of biofuels, biopower, and bioproducts. Bioenergy sorghum's 4-5 m stems account for ~80% of the harvested biomass. Stems accumulate high levels of sucrose that could be used to synthesize bioethanol and useful biopolymers if information about cell-type gene expression and regulation in stems was available to enable engineering. To obtain this information, laser capture microdissection was used to isolate and collect transcriptome profiles from five major cell types that are present in stems of the sweet sorghum Wray...
February 26, 2024: Plant Journal
https://read.qxmd.com/read/38407543/variants-of-a-major-dna-satellite-discriminate-parental-subgenomes-in-a-hybrid-parthenogenetic-lizard-darevskia-unisexualis-darevsky-1966
#37
JOURNAL ARTICLE
Pavel Nikitin, Sviatoslav Sidorov, Thomas Liehr, Ksenia Klimina, Ahmed Al-Rikabi, Vitaly Korchagin, Oxana Kolomiets, Marine Arakelyan, Victor Spangenberg
Hybrid parthenogenetic animals are an exceptionally interesting model for studying the mechanisms and evolution of sexual and asexual reproduction. A diploid parthenogenetic lizard Darevskia unisexualis is a result of an ancestral cross between a maternal species Darevskia raddei nairensis and a paternal species Darevskia valentini and presents a unique opportunity for a cytogenetic and computational analysis of a hybrid karyotype. Our previous results demonstrated a significant divergence between the pericentromeric DNA sequences of the parental Darevskia species; however, an in-depth comparative study of their pericentromeres is still lacking...
February 26, 2024: Journal of Experimental Zoology. Part B, Molecular and Developmental Evolution
https://read.qxmd.com/read/38405958/spatial-top-down-proteomics-for-the-functional-characterization-of-human-kidney
#38
Kevin J Zemaitis, James M Fulcher, Rashmi Kumar, David J Degnan, Logan A Lewis, Yen-Chen Liao, Marija Veličković, Sarah M Williams, Ronald J Moore, Lisa M Bramer, Dušan Veličković, Ying Zhu, Mowei Zhou, Ljiljana Paša-Tolić
BACKGROUND: The Human Proteome Project has credibly detected nearly 93% of the roughly 20,000 proteins which are predicted by the human genome. However, the proteome is enigmatic, where alterations in amino acid sequences from polymorphisms and alternative splicing, errors in translation, and post-translational modifications result in a proteome depth estimated at several million unique proteoforms. Recently mass spectrometry has been demonstrated in several landmark efforts mapping the human proteoform landscape in bulk analyses...
February 13, 2024: bioRxiv
https://read.qxmd.com/read/38403108/ex-vivo-microscopic-onco-testicular-sperm-extraction-step-by-step-surgical-technique-at-time-of-radical-orchiectomy
#39
JOURNAL ARTICLE
Christopher K Villota, Sean W Hou, Clark Judge, Scott Eggener, Gladell Paner, Omer A Raheem
OBJECTIVE: To demonstrate the intraoperative surgical techniques required for a simultaneous radical orchiectomy and microscopic onco-testicular sperm extraction (m-OncoTESE) in step- by-step fashion. DESIGN: Video presentation. SETTING: University hospital (University of Chicago). PATIENT(S): A 37-year-old male (status post right orchiectomy at another institution for stage II-C testicular seminoma with positive preoperative tumor markers) was referred for contralateral orchiectomy for multifocal left testis mass and fertility preservation...
February 23, 2024: Fertility and Sterility
https://read.qxmd.com/read/38397149/x-chromosome-specific-repeats-in-non-domestic-bovidae
#40
JOURNAL ARTICLE
Svatava Kubickova, Olga Kopecna, Halina Cernohorska, Jiri Rubes, Miluse Vozdova
Repetitive sequences form a substantial and still enigmatic part of the mammalian genome. We isolated repetitive DNA blocks of the X chromosomes of three species of the family Bovidae: Kobus defassa (KDEXr sequence), Bos taurus (BTAXr sequence) and Antilope cervicapra (ACEXr sequence). The copy numbers of the isolated sequences were assessed using qPCR, and their chromosomal localisations were analysed using FISH in ten bovid tribes and in outgroup species. Besides their localisation on the X chromosome, their presence was also revealed on the Y chromosome and autosomes in several species...
January 25, 2024: Genes
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