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      Recall of B cell memory depends on relative locations of prime and boost immunization

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          Abstract

          Immunization or microbial infection can establish long-term B cell memory not only systemically but also locally. Evidence has suggested that local B cell memory contributes to early local plasmacytic responses after secondary challenge. However, it is unclear whether locality of immunization plays any role in memory B cell participation in recall germinal centers (GCs), which is essential for updating their B cell antigen receptors (BCRs). Using single B cell culture and fate mapping, we have characterized BCR repertoires in recall GCs after boost immunizations at sites local or distal to the priming. Local boosts with homologous antigen recruit the progeny of primary GC B cells to recall GCs more efficiently than do distal boosts. Recall GCs elicited by local boosts contain significantly more B cells with elevated levels of immunoglobulin (Ig) mutation and higher avidity BCRs. This local preference is unaffected by blocking CD40:CD154 interaction to terminate active, GC responses. Local boosts with heterologous antigens elicit secondary GCs with B cell populations enriched for cross-reactivity to the prime and boost antigens; in contrast, cross-reactive GC B cells are rare after distal boosts. Our results suggest that local B cell memory is retained in the form of memory B cells, GC B cells, and GC phenotype B cells that are independent of organized GC structures and that these persistent “primed B cells” contribute to recall GC responses at local sites. Our findings indicate the importance of locality in humoral immunity and inform serial vaccination strategies for evolving viruses.

          Abstract

          The participation of memory B cells in recall germinal centers depends on whether the boost is local or distal to the priming site.

          Local booster shots are superior

          Germinal center (GC) responses to vaccination or infection generate memory B cells that contribute to long-term protective immunity. Whether location of immunization affects memory B cell recall into secondary GC responses remains to be determined. Kuraoka et al. used a prime boost immunization approach, whereby mice received a homologous antigen booster on the same (ipsilateral) or opposite (contralateral) leg. The magnitude and serum antibody responses were similar for ipsilateral and contralateral boosters; however, ipsilateral boosters elicited better quality GCs with higher avidity for antigen, higher immunoglobulin mutation frequencies, and increased recall of B cells from primary GCs. These results indicate that reactivation of local memory B cells generates superior secondary GC responses and suggest that location of booster immunization should be considered in vaccination strategies.

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          Most cited references60

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          MUSCLE: multiple sequence alignment with high accuracy and high throughput.

          We describe MUSCLE, a new computer program for creating multiple alignments of protein sequences. Elements of the algorithm include fast distance estimation using kmer counting, progressive alignment using a new profile function we call the log-expectation score, and refinement using tree-dependent restricted partitioning. The speed and accuracy of MUSCLE are compared with T-Coffee, MAFFT and CLUSTALW on four test sets of reference alignments: BAliBASE, SABmark, SMART and a new benchmark, PREFAB. MUSCLE achieves the highest, or joint highest, rank in accuracy on each of these sets. Without refinement, MUSCLE achieves average accuracy statistically indistinguishable from T-Coffee and MAFFT, and is the fastest of the tested methods for large numbers of sequences, aligning 5000 sequences of average length 350 in 7 min on a current desktop computer. The MUSCLE program, source code and PREFAB test data are freely available at http://www.drive5. com/muscle.
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            Defining trained immunity and its role in health and disease

            Immune memory is a defining feature of the acquired immune system, but activation of the innate immune system can also result in enhanced responsiveness to subsequent triggers. This process has been termed ‘trained immunity’, a de facto innate immune memory. Research in the past decade has pointed to the broad benefits of trained immunity for host defence but has also suggested potentially detrimental outcomes in immune-mediated and chronic inflammatory diseases. Here we define ‘trained immunity’ as a biological process and discuss the innate stimuli and the epigenetic and metabolic reprogramming events that shape the induction of trained immunity.
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              Is Open Access

              Kalign – an accurate and fast multiple sequence alignment algorithm

              Background The alignment of multiple protein sequences is a fundamental step in the analysis of biological data. It has traditionally been applied to analyzing protein families for conserved motifs, phylogeny, structural properties, and to improve sensitivity in homology searching. The availability of complete genome sequences has increased the demands on multiple sequence alignment (MSA) programs. Current MSA methods suffer from being either too inaccurate or too computationally expensive to be applied effectively in large-scale comparative genomics. Results We developed Kalign, a method employing the Wu-Manber string-matching algorithm, to improve both the accuracy and speed of multiple sequence alignment. We compared the speed and accuracy of Kalign to other popular methods using Balibase, Prefab, and a new large test set. Kalign was as accurate as the best other methods on small alignments, but significantly more accurate when aligning large and distantly related sets of sequences. In our comparisons, Kalign was about 10 times faster than ClustalW and, depending on the alignment size, up to 50 times faster than popular iterative methods. Conclusion Kalign is a fast and robust alignment method. It is especially well suited for the increasingly important task of aligning large numbers of sequences.
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                Author and article information

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                Journal
                Science Immunology
                Sci. Immunol.
                American Association for the Advancement of Science (AAAS)
                2470-9468
                May 06 2022
                May 06 2022
                : 7
                : 71
                Affiliations
                [1 ]Department of Immunology, Duke University, Durham, NC, USA.
                [2 ]Laboratory of Molecular Medicine, Children’s Hospital, Harvard Medical School, Boston, MA, USA.
                [3 ]Department of Microbiology, Icahn School of Medicine at Mount Sinai, New York, NY, USA.
                [4 ]Howard Hughes Medical Institute, Boston, MA, USA.
                [5 ]Department of Surgery, Duke University, Durham, NC, USA.
                [6 ]Duke Human Vaccine Institute, Duke University, Durham, NC, USA.
                Article
                10.1126/sciimmunol.abn5311
                35522723
                5b53bcb4-b23d-4898-99b6-33b9ee00a0de
                © 2022
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