Publications by authors named "Zeli Chen"
Background: Intercropping increases land use efficiency and farmland ecological diversity. However, little is understood about whether and how soil biota, metabolites, and nutrients change under interspecific competition among plants. Thus, this study aimed to explore the changes in the physicochemical properties, microbial communities, and metabolites of rhizosphere and bulk soils of pepper monocropping and pepper-maize intercropping systems.
View Article and Find Full Text PDFHere, we report the complete genome sequence of Jasminum polyanthum nepovirus 1 (JPV1), a novel virus associated with foliar ringspot symptoms in Jasminum polyanthum (Oleaceae). The genome of JPV1 consists of RNA1 and RNA2, both of which are monocistronic and are 7081 nt and 4212 nt in length, respectively. RNA1 encodes six functional proteins, including the X1 protein, X2 protein, NTP-binding protein (NTB), VPg protein, protease cofactor (Pro), and RNA-dependent RNA polymerase (RdRp), while RNA2 encodes three functional proteins: the 2A protein, movement protein (MP), and capsid protein (CP).
View Article and Find Full Text PDFArticle Synopsis
- * Conducted at Chongqing Aier Eye Hospital, the study included 24 participants with PSF for at least one month after surgery, who were randomized to receive either SML or sham treatment, with evaluations over six months for changes in fluid volume and visual acuity.
- * Results showed a significant reduction in OCT volume around the macular fovea in the SML group compared to the sham group after six months, indicating that SML may help absorb
Generating synthetic computed tomography for radiotherapy: SynthRAD2023 challenge report.
Evi M C Huijben
,
Maarten L Terpstra
,
Arthur Jr Galapon
,
Suraj Pai
,
Adrian Thummerer
,
Zeli Chen
,
Zijie Chen
Med Image Anal
October 2024
Radiation therapy plays a crucial role in cancer treatment, necessitating precise delivery of radiation to tumors while sparing healthy tissues over multiple days. Computed tomography (CT) is integral for treatment planning, offering electron density data crucial for accurate dose calculations. However, accurately representing patient anatomy is challenging, especially in adaptive radiotherapy, where CT is not acquired daily.
View Article and Find Full Text PDFComplete genome sequence of a novel badnavirus infecting Fatsia japonica in China.
Arch Virol
April 2024
The complete genome sequence of a novel badnavirus, tentatively named "fatsia badnavirus 1" (FaBV1, OM540428), was identified in Fatsia japonica. The infected plant displayed virus-like symptoms on leaves, including yellowing and chlorosis. The genome of FaBV1 is 7313 bp in length and similar in size and organization to other members of the genus Badnavirus (family Caulimoviridae), containing four open reading frames (ORFs), three of which are found in all known badnaviruses, and the other of which is only present in some badnaviruses.
View Article and Find Full Text PDFDoseDiff: Distance-Aware Diffusion Model for Dose Prediction in Radiotherapy.
IEEE Trans Med Imaging
October 2024
Article Synopsis
- Treatment planning in radiotherapy is often a slow trial-and-error process handled by medical physicists, and existing predictive methods for dose distribution struggle with using distance info effectively.
- This paper introduces a new model called DoseDiff, which improves dose prediction by employing a series of denoising steps while integrating computed tomography images with signed distance maps (SDMs) that indicate distances to target outlines.
- Additionally, the proposed MMFNet enhances data fusion at a feature level using multi-scale techniques, achieving better performance and visual quality compared to current leading methods in dose prediction.
Multi-Scale Tokens-Aware Transformer Network for Multi-Region and Multi-Sequence MR-to-CT Synthesis in a Single Model.
IEEE Trans Med Imaging
February 2024
Article Synopsis
- Magnetic resonance (MR)-only radiotherapy treatment planning is gaining traction due to improved accuracy from synthesized CT images, though creating these images from various MR sequences is complex due to anatomical differences.
- The proposed solution, called the multi-scale tokens-aware Transformer network (MTT-Net), efficiently captures global spatial information across different anatomical regions and MR sequences by utilizing a multi-scale image tokens Transformer and multi-shape window self-attention.
- MTT-Net demonstrated exceptional performance on a multi-center dataset, showing improved accuracy and visual quality in synthesizing CT images for both the head & neck and abdomen regions compared to existing methods.
Complete genome sequence of a novel fusarivirus from the phytopathogenic fungus Fusarium sp.
Fuhong Gao
,
Rex Frimpong Anane
,
Zhengling Liu
,
Shaomei Zi
,
Shangyun Li
,
Xingquan Chen
,
Zeli Chen
Arch Virol
September 2023
Article Synopsis
- Fusarium diseases affect various crops, causing significant production issues in both agricultural and natural environments, leading to serious economic and ecological consequences.
- Researchers discovered a new mycovirus called "Fusarium fusarivirus 1" (FuFV1) found in a strain of Fusarium sp., which has a genome consisting of 6,391 nucleotides and three open reading frames (ORFs) associated with important viral functions.
- Phylogenetic analysis indicates that FuFV1 is closely related to Fusarium poae fusarivirus 1, suggesting it should be classified as a novel member of the genus Alphafusarivirus within the Fusariviridae family.
Article Synopsis
- A new single-stranded RNA virus named "Valeriana jatamansi tymovirus 1" (VaJV1) was isolated from Valeriana jatamansi plants in Yunnan Province, China, which exhibited vein-clearing symptoms.
- The complete genome of VaJV1 is 6,215 nucleotides long and has three open reading frames (ORFs), fitting the typical structure of tymoviruses.
- BLASTn analysis revealed that VaJV1 shares significant genetic similarity with okra mosaic virus, and phylogenetic analysis suggests it is a new species within the Tymovirus genus.
Article Synopsis
- A novel closterovirus, named "Dregea volubilis closterovirus 1" (DvCV1), was identified in China and its complete genome sequence was determined using high-throughput sequencing.
- The genome of DvCV1 is 16,165 nucleotides long and contains nine open reading frames (ORFs), aligning it with other members of the Closterovirus genus.
- Genetic analysis reveals that DvCV1 shares moderate nucleotide and protein sequence identities with known closteroviruses, indicating it's a new member of the genus and the first reported virus infecting Dregea volubilis.
Article Synopsis
- A new virus called "Myrica rubra citlodavirus 1" (MRV1) was discovered in Yunnan from leaves of the Myrica rubra plant, which showed signs of leaf deformity and discoloration.
- MRV1 is a single-stranded circular DNA virus with a genome of 3775 nucleotides and six open reading frames that code for various proteins, including a coat protein and movement proteins.
- Phylogenetic analysis reveals that MRV1 is closely related to the citrus chlorotic dwarf associated virus (CCDaV) and suggests it should be classified as a new species within the Citlodavirus genus in the Geminiviridae family.
Modified hydrodissection as a safe and effective treatment modality for rotating lens in cataract surgery.
Indian J Ophthalmol
March 2023
Article Synopsis
- - The article introduces a new method for hydrodissection in cataract surgery that enhances safety and effectiveness.
- - The technique involves positioning the cannula tip at the edge of the capsulorhexis near the main incision and using it to inject fluid that separates the lens from the capsule.
- - This modified method is reported to be easily reproducible and can be learned quickly by practitioners.
Article Synopsis
- The synthesis of CT images from MR images is crucial for improving radiotherapy treatment planning, addressing the lack of electron density information in MR-only approaches.
- Challenges remain in aligning abdominal MR and CT images and extracting meaningful features for accurate synthesis.
- This study introduces a novel quartet attention aware closed-loop learning framework that enhances MR-to-CT synthesis by simultaneously registering images, demonstrating superior performance compared to existing methods.
Article Synopsis
- The study aimed to create and validate a machine learning model using multiparameter MR imaging to predict pathological complete response (pCR) in locally advanced rectal cancer patients after neoadjuvant chemoradiotherapy.* -
- It involved 151 patients split into internal and external validation sets, employing various classifiers, like random forest and support vector machine, to evaluate predictive accuracy through metrics like the ROC curve.* -
- Results showed that the random forest model outperformed other classifiers, yielding high accuracy and promising predictive performance, indicating its potential for improving management strategies for LARC patients.*
Article Synopsis
- - This study investigates the cell adhesion molecule 2 (CADM2) gene, which is linked to various behavioral traits, aiming to understand its influence across different psycho-behavioral characteristics.
- - By analyzing data from the UK Biobank involving up to 453,349 participants, researchers found significant associations between CADM2 and 50 different traits, including cognitive abilities and risk-taking behaviors.
- - The study highlights that CADM2's expression in brain, lung, mammary, and adipose tissues is significantly related to these traits, suggesting a shared biological basis among them.
Article Synopsis
- A new virus called "Paris alphapartitivirus 1" (ParAPV1) was identified in plants with symptoms like leaf chlorosis in Yunnan, China.
- The virus has a bipartite genome made up of two dsRNA segments, one coding for RNA-dependent RNA polymerase and the other for a coat protein.
- Genetic analysis shows that ParAPV1 is closely related to other partitiviruses, suggesting it should be classified as a new member of the Alphapartitivirus genus.
Adjusted femtosecond laser capsulotomy distance in white cataracts to decrease incomplete capsulotomy: a randomized comparative cohort study.
Graefes Arch Clin Exp Ophthalmol
August 2022
Article Synopsis
- This study aimed to evaluate the safety and effectiveness of different distances in femtosecond laser capsulotomy for white cataracts surgery by comparing three different surgical approaches.
- A total of 113 eyes were analyzed, revealing that the standard position group had a significantly higher rate of incomplete capsulotomy and capsule tears compared to the adjusted distance groups.
- The results suggest that modifying the capsulotomy distance by decreasing the pre-anterior distance and increasing the post-anterior distance can reduce surgical complications and improve outcomes in white cataract surgeries.
Complete genome sequence of a novel mitovirus detected in Paris polyphylla var. yunnanensis.
Arch Virol
February 2022
Article Synopsis
- Paris mitovirus 1 (ParMV1) is a newly identified positive-sense RNA virus found in diseased Paris polyphylla var. yunnanensis plants in Yunnan, China.
- The virus has a genome of 2,751 nucleotides with a single open reading frame that encodes an RNA-dependent RNA polymerase (RdRp), featuring six conserved motifs unique to mitoviruses.
- Comparative and phylogenetic analyses indicate that ParMV1 is closely related to other mitoviruses and should be classified as a new member of the genus Mitovirus within the family Mitoviridae.
Characterization of a novel Tombusviridae species isolated from Paris polyphylla var. yunnanensis.
Arch Virol
November 2021
Article Synopsis
- A new virus named Paris virus 2 (ParV2) was discovered in a diseased plant species and its complete genome sequenced, revealing a positive-sense single-stranded RNA virus with a length of 4,118 nucleotides.
- The genome of ParV2 contains six open reading frames (ORFs), with the first two encoding proteins, including a conserved RNA-dependent RNA polymerase (RdRP) essential for viral replication.
- Comparisons with other viruses in the Tombusviridae family indicated that ParV2 shares 31.7-55.5% nucleotide sequence identity, making it a novel member of this virus family, most closely related to ginger chlorotic fleck-associated tombusvirus.
Article Synopsis
- A new negative-stranded RNA virus called "Yunnan paris negative-stranded virus" (YPNSV) was discovered in plants with visible symptoms in Yunnan.
- Researchers sequenced its genome, revealing it has a bipartite structure with two RNA segments: nsRNA1 that codes for a viral polymerase, and ambisense RNA2 that encodes a movement protein and nucleocapsid protein.
- Comparisons show YPNSV shares significant genetic similarities with watermelon crinkle leaf-associated virus 2 and is classified as a new member of the Coguvirus genus within the Phenuiviridae family.
Complete genome sequence of a novel potyvirus isolated from Polygonatum kingianum.
Arch Virol
September 2020
Article Synopsis
- A novel potyvirus named "Polygonatum kingianum virus 1" (PKgV1) has been identified in the plant Polygonatum kingianum in China, with a complete genome sequence registered in GenBank.
- PKgV1 has a characteristic genome layout typical of potyviruses, consisting of a large open reading frame that encodes a polyprotein, which is expected to be processed into 10 functional proteins.
- Phylogenetic and comparative analysis show that PKgV1 shares considerable sequence identity with other potyviruses, particularly clustering closely with lettuce mosaic virus, confirming its classification as a new member of the Potyvirus genus.
Article Synopsis
- - A new potyvirus named "paris virus 1" (ParV1) was discovered in Paris polyphylla var. yunnanensis, with its complete genome sequence published in GenBank.
- - The genome features a single large open reading frame that encodes a polyprotein of 3240 amino acids, which is predicted to be cleaved into 10 functional proteins, showing typical potyvirus structures.
- - Comparisons with other potyviruses reveal that ParV1 shares a significant portion of its genetic material with related viruses, particularly Thunberg fritillary mosaic virus, suggesting that it is a distinct member of the potyvirus genus.
Hydrogen postconditioning promotes survival of rat retinal ganglion cells against ischemia/reperfusion injury through the PI3K/Akt pathway.
Biochem Biophys Res Commun
January 2018
Article Synopsis
- Retinal ischemia/reperfusion injury (IRI) contributes to various eye diseases, and a recent study found that inhaling hydrogen (H) postconditioning (HPC) can protect retinal ganglion cells (RGCs) in rats.
- The research involved inducing IRI in rats and following it with 1 hour of inhaling a hydrogen-oxygen mix for a week, assessing RGC density and visual function through various techniques.
- Results indicated that HPC reduced RGC apoptosis and improved visual function by activating the PI3K/Akt pathway, while blocking this pathway diminished the protective effects of HPC.
Article Synopsis
- The study examined the protective effects of carbon monoxide (CO) inhalation on retinal neurons in rats with optic nerve crush (ONC), a condition causing retinal ganglion cell (RGC) damage.
- Rats preconditioned with CO showed significantly higher RGC survival and better visual function compared to those that received only air prior to the injury.
- The findings suggest that CO may help prevent cell death in neurons by inhibiting apoptosis, indicating its potential as a neuroprotective agent against optic nerve injuries.