In this task, you're given a paragraph from the research paper and your task is to generate a suitable title for the research paper based on the given paper. Under 100 words is a good title length.

The class I major histocompatibility complex (MHC) is capable of binding peptides derived from intracellular proteins and displaying them at the cell surface. The recognition of these peptide-MHC (pMHC) complexes by T-cells is the cornerstone of cellular immunity, enabling the elimination of infected or tumoral cells. T-cell-based immunotherapies against cancer, which leverage this mechanism, can greatly benefit from structural analyses of pMHC complexes. Several attempts have been made to use molecular docking for such analyses, but pMHC structure remains too challenging for even state-of-the-art docking tools. To overcome these limitations, we describe the use of an incremental meta-docking approach for structural prediction of pMHC complexes. Previous methods applied in this context used specific constraints to reduce the complexity of this prediction problem, at the expense of generality. Our strategy makes no assumption and can potentially be used to predict binding modes for any pMHC complex. Our method has been tested in a re-docking experiment, reproducing the binding modes of 25 pMHC complexes whose crystal structures are available. This study is a proof of concept that incremental docking strategies can lead to general geometry prediction of pMHC complexes, with potential applications for immunotherapy against cancer or infectious diseases.
General Prediction of Peptide-MHC Binding Modes Using Incremental Docking: A Proof of Concept

Faeces samples from 218, 1 to 30-day-old, diarrheic dairy calves in 65 dairy herds were screened for the presence of Cryptosporidium and concurrent infections with rotavirus, coronavirus, F5 Escherichia coli and Salmonella spp. Calves were grouped according to their age as follows: 1±7, 8±14, 15±21 and 22±30 days. Cryptosporidium infection was detected in 43.8%, 71.9%, 63.2% and 6.9% of the calves in the respective age groups. Significant differences in the detection rate of Cryptosporidium were found between the age group 22±30 days and all other age groups, and between the age group 1±7 days and the age groups 8±14 days and 15±21 days. Cryptosporidium was the only enteropathogen detected in 60 of the 114 (52.6%) diarrheic calves. Concurrent infections with other enteropathogen(s) were detected in 64.3%, 46.3%, 39.5% and 0% of the Cryptosporidium-infected calves in the age groups 1±7, 8±14, 15±21 and 22±30 days, respectively. A significant age-associated decrease in the detection rate of mixed infections (p < 0.05) was found. The detection rates of the other enteropathogens considered in calves with Cryptosporidium infection were 87% for rotavirus, 11.1% for coronavirus, 27.8% for F5 E. coli and 1.8% for Salmonella. #
Cryptosporidium and concurrent infections with other major enterophatogens in 1 to 30-day-old diarrheic dairy calves in central Spain

Porcine epidemic diarrhea virus (PEDV) is a highly contagious coronavirus that causes severe diarrhea and death in neonatal piglets. Passive immunization with neutralizing antibodies against PEDV is an effective prevention measure. In this study, single chain fragment variable (scFv) antibodies against PEDV were screened from the porcine scFv phage display library. After four rounds of biopanning, scFvs that showed higher affinity to the PEDV antigen were selected for further study. The scFv genes were cloned into the expression plasmid for recombinant protein expression. These scFvs were shown to inhibit PEDV infectivity by the plaque reduction neutralization assay. Immunofluorescence assay (IFA) revealed that the epitopes recognized by these scFvs were in the S1 region of the spike protein. The potential of scFvs to provide prevention against PEDV infections in piglets was further investigated. Piglets orally administered scFvs showed no to mild clinical symptoms, significantly less viral shedding, no mortality and no intestinal lesions. The field application also revealed that the survival rate of piglets was significantly increased by oral administration of scFvs. Our data support the potential role of scFvs in the prevention and treatment of PEDV infection. virulent variants emphasizes the importance of developing an effective method to control their spread and infection. PEDV is a member of the Alpha-coronavirus genus, within the family Coronaviridae in the order Nidovirales [3,10]. PEDV possesses an~28 kb single-stranded, positive-sense, RNA genome, which encodes seven open reading frames (ORF 1a/1b, and ORF 2-6) [11] . Among them, the first gene ORFs 1a/1b encode large replicase polyproteins, which are processed to generate 16 nonstructural proteins (nsp1-nsp16) [12] . ORF 2, -3, -4, -5, and -6 encode structural/accessory proteins, including spike (S) protein, nonstructural accessory protein, envelope (E) protein, membrane (M) protein, and nucleocapsid (N) protein, respectively [13] . The S protein is a type I glycoprotein that plays a crucial role in virus attachment, entry, receptor binding, cell membrane fusion and induction of neutralizing antibodies [14, 15] . The S protein can be cleaved into S1 (residues 1-789) and S2 subunits (residues 790-1386) by host protease [16] . The S1 subunit contains the N-terminal domain (NTD, residues 1-233) that shows sialic acid binding activity and the C-terminal domain (CTD, residues 253-638) that attaches to the cell surface receptor (e.g., aminopeptidase N (APN)) [17]. The S2 subunit mediates virus-cell membrane fusion [16] . S protein is an excellent target for vaccine development for the induction of protective immunity against PEDV. Several studies have confirmed that antibodies, especially neutralizing antibodies stimulated by the vaccine expressing spike protein, are able to protect the host from PEDV infection [18, 19] . Additionally, neutralizing antibodies against PEDV can be developed as candidates for passive protection. Lee et al. reported that egg yolk antibody (IgY) against S1 domain of spike protein efficiently protects neonatal piglets against PEDV, supporting the potential of antibody reagents as a prophylactic or therapeutic agent to protect piglets against PEDV infection [20] . Genetically engineered recombinant antibody fragments are increasingly being used in medical diagnosis and therapy in many diseases. The single chain fragment variable (ScFv), also called single-chain antibody, is one of the most popular types of genetically engineered antibodies [21, 22] . The scFv consists of a variable light chain (V L ) and heavy chain (V H ) that are connected by a short peptide linker [23] . The advantages of scFv are its small size, low immunogenicity, high specificity, and ability to be genetically engineered. The scFv can be produced in bacterial expression systems for large-scale production. Although scFv is smaller than full-length IgG, it retains the complete antigen binding site [24] . Several scFvs have been produced to control virus infection, including scFvs against chicken infectious bursal disease virus, scFvs targeting human influenza virus H5N1, and scFvs against the phosphoprotein of Newcastle disease virus [25] [26] [27] [28] . Thus, scFv is considered a potential reagent for the prevention and treatment of viral disease. At present, there have been no reports of the selection of porcine scFvs to target the porcine pathogen. In this study, we constructed a scFv phage display library using peripheral blood lymphocytes of piglets induced with PEDV. The scFvs against PEDV were selected, and their neutralization efficiencies were evaluated. We further confirmed that the mechanism of scFvs neutralization of PEDV occurred through binding to the viral spike protein. The immunoprophylactic and therapeutic properties of scFvs in neonatal piglets against PEDV infection were further explored. Our results provide a foundation for the development of scFv-based drugs for the prevention and treatment of PEDV infection. Materials and Methods 2.

Single Chain Fragment Variable (scFv) Antibodies Targeting the Spike Protein of Porcine Epidemic Diarrhea Virus Provide Protection against Viral Infection in Piglets