Changze Han

Codonopsis pilosula regulates pathogen defense mechanisms through collaboration of root volatile compounds and microbial interactions

Zhuanqiang Wu, Fenfen Liang, Ning Zhu, Changze Han et autres

Codonopsis pilosula responds to pathogen infection by modulating root volatile organic compounds (VOCs) and reshaping the rhizosphere microbiome. GC–IMS analysis linked root VOCs with microbial community composition, showing positive correlations with Bradyrhizobium and beneficial fungi, and negative associations with Alternaria pathogens. Representative …

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Rhizosphere microbial recruitment and metabolite-mediated regulation drive contrasting salt tolerance mechanisms in two alfalfa cultivars

Zhenkun Wu, Wen Luo, Qian Zhang, Shaowei Li et autres

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Integrating transcriptome, metabolome and microbiome to explore the interaction mechanism between secondary metabolites and root-associated bacteria of Codonopsis pilosula

Ning Zhu, Minhui Yang, Xingshuai Cui, Changze Han et autres

This study aims to explore the mechanisms underlying the interactions between the secondary metabolism and root-associated bacteria of Codonopsis pilosula . This study collected root and rhizosphere soil samples from various C. pilosula cultivars and employed metabolome, transcriptome, and microbiome analysis to …

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Influence of the transcription factor ABI5 on growth and development in Arabidopsis

Xin Chen, Changze Han, Rongrong Yang, Xinwen Wang et autres

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Mapping the Evolutionary Space of SARS-CoV-2 Variants to Anticipate Emergence of Subvariants Resistant to COVID-19 Therapeutics

Roberth Anthony Rojas Chávez, Mohammad Fili, Changze Han, Syed A. Rahman et autres

New sublineages of SARS-CoV-2 variants-of-concern (VOCs) continuously emerge with mutations in the spike glycoprotein. In most cases, the sublineage-defining mutations vary between the VOCs. It is unclear whether these differences reflect lineage-specific likelihoods for mutations at each spike position or the stochastic …

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A classification algorithm based on dynamic ensemble selection to predict mutational patterns of the envelope protein in HIV-infected patients

Mohammad Fili, Guiping Hu, Changze Han, Alexa Kort et autres

BACKGROUND: Therapeutics against the envelope (Env) proteins of human immunodeficiency virus type 1 (HIV-1) effectively reduce viral loads in patients. However, due to mutations, new therapy-resistant Env variants frequently emerge. The sites of mutations on Env that appear in each patient are …

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Commonly Elicited Antibodies against the Base of the HIV-1 Env Trimer Guide the Population-Level Evolution of a Structure-Regulating Region in gp41

Roberth Anthony Rojas Chávez, Devlin Boyt, Nathan Schwery, Changze Han et autres

Infection by HIV-1 elicits formation of antibodies that target the viral Env proteins and can inactivate the virus. The specific targets of these antibodies vary among infected individuals. It is unclear whether some target specificities are shared among the antibody responses of …

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A New Classification Method Based on Dynamic Ensemble Selection and its Application to Predict Variance Patterns in HIV-1 Env

Mohammad Fili, Guiping Hu, Changze Han, Alexa Kort et autres

ABSTRACT Therapeutics that target the envelope glycoproteins (Envs) of human immunodeficiency virus type 1 (HIV-1) effectively reduce virus levels in patients. However, due to mutations, new Env variants are frequently generated, which may be resistant to the treatments. The appearance of such …

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Mutability Patterns Across the Spike Glycoprotein Reveal the Diverging and Lineage-specific Evolutionary Space of SARS-CoV-2

Roberth Anthony Rojas Chávez, Mohammad Fili, Changze Han, Syed A. Rahman et autres

Mutations in the spike glycoprotein of SARS-CoV-2 allow the virus to probe the sequence space in search of higher-fitness states. New sublineages of SARS-CoV-2 variants-of-concern (VOCs) continuously emerge with such mutations. Interestingly, the sites of mutation in these sublineages vary between the …

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Limited Variation between SARS-CoV-2-Infected Individuals in Domain Specificity and Relative Potency of the Antibody Response against the Spike Glycoprotein

Hanora Van Ert, Dana Bohan, Kai J. Rogers, Mohammad Fili et autres

Infection by SARS-CoV-2 elicits antibodies against various domains of the spike protein, including the RBD and NTD of subunit S1 and against subunit S2. The antibody responses of different infected individuals exhibit different efficacies to inactivate (neutralize) the virus. Here, we show …

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A Stacking-Based Classification Approach: Case Study in Volatility Prediction of HIV-1

Mohammad Fili, Guiping Hu, Changze Han, Alexa Kort et autres

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Limited variation between SARS-CoV-2-infected individuals in domain specificity and relative potency of the antibody response against the spike glycoprotein

Hanora Van Ert, Dana Bohan, Kai J. Rogers, Mohammad Fili et autres

ABSTRACT The spike protein of SARS-CoV-2 is arranged as a trimer on the virus surface, composed of three S1 and three S2 subunits. Infected and vaccinated individuals generate antibodies against spike, which can neutralize the virus. Most antibodies target the receptor-binding domain …

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