Exploring the antimicrobial peptidome of nematodes through phylum-spanning in silico analyses highlights novel opportunities for pathogen control.
Exploring the antimicrobial peptidome of nematodes through phylum-spanning in silico analyses highlights novel opportunities for pathogen control.
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通过跨门的计算机分析探索线虫的抗菌肽，为病原体控制提供了新的机会。
DOI：
10.1371/journal.pntd.0011618
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发表时间：
2023-09
影响因子：
3.8
通讯作者：
Mousley, Angela
中科院分区：
文献类型：
--
作者：
Irvine, Allister;Huws, Sharon A.;Atkinson, Louise E.;Mousley, Angela
抗菌肽（AMP）是无脊椎动物先天免疫系统的关键组成部分，并提供针对微生物威胁的关键保护。线虫显示出不同的生活策略，它们暴露在异质的，微生物丰富的环境中，突出了它们对先天免疫系统的需求。在蜕皮动物中，节肢动物AMP已被很好地表征，但线虫来源的AMP知识是有限的。在这项研究中，在134个线虫基因组中的AMP编码基因的分布和丰度进行了检查，提供了最全面的轮廓内线虫门AMP候选人。通过基因组和转录组分析，我们揭示了线虫门是推定的AMP多样性的丰富来源，并证明（i）推定的AMP组谱受线虫生活方式的影响，其中自由生活的线虫似乎显示相对于寄生物种富集的推定AMP谱;（ii）线虫进化枝之间推定的AMP谱的主要差异，其中进化枝9/V和10/IV物种具有扩展的推定的AMP库;（iii）具有高度限制性特征的AMP组（例如天蚕抗菌肽和双孢菌素）和分布更广泛的其他组[例如线虫和富含甘氨酸的分泌肽（GRSP）];（iv）CSαβ亚组成员分布和丰度的复杂性;（v）推定的AMP在主要线虫寄生虫的面向宿主的生命阶段和生物液中表达。这些数据表明，线虫门显示多样性，在推定的抗菌肽，并强调需要功能表征，以揭示其作用和重要性的线虫生物学和宿主线虫微生物组的相互作用。线虫是地球上数量最多的动物之一，几乎存在于每一个自然栖息地。在全球范围内，寄生线虫对人类、动物和植物健康造成重大影响。尽管许多寄生线虫栖息在微生物丰富的环境中，但人们对寄生线虫如何与微生物相互作用知之甚少。在其他无脊椎动物中，抗菌肽（AMP）在防御病原微生物方面至关重要。通过表征线虫AMP多样性和探索线虫来源的AMP的作用，我们可以揭示新的抗菌和驱虫剂的发展目标。在这项研究中，我们分析了五个已知的AMP组在线虫门中的分布。这种同源性导向的方法表明，线虫出现丰富的AMP多样性的主要差异的丰度和分布的推定AMP编码基因在线虫的生活方式和分支。此外，转录组学和蛋白质组学分析表明，许多已确定的AMP编码基因出现在线虫的生命阶段，与主机相互作用的生物相关。这项研究提供了一个潜在的线虫来源的AMP的数据库，可以驱动功能分析，探索线虫AMP的作用。
Antimicrobial Peptides (AMPs) are key constituents of the invertebrate innate immune system and provide critical protection against microbial threat. Nematodes display diverse life strategies where they are exposed to heterogenous, microbe rich, environments highlighting their need for an innate immune system. Within the Ecdysozoa, arthropod AMPs have been well characterised, however nematode-derived AMP knowledge is limited. In this study the distribution and abundance of putative AMP-encoding genes was examined in 134 nematode genomes providing the most comprehensive profile of AMP candidates within phylum Nematoda. Through genome and transcriptome analyses we reveal that phylum Nematoda is a rich source of putative AMP diversity and demonstrate (i) putative AMP group profiles that are influenced by nematode lifestyle where free-living nematodes appear to display enriched putative AMP profiles relative to parasitic species; (ii) major differences in the putative AMP profiles between nematode clades where Clade 9/V and 10/IV species possess expanded putative AMP repertoires; (iii) AMP groups with highly restricted profiles (e.g. Cecropins and Diapausins) and others [e.g. Nemapores and Glycine Rich Secreted Peptides (GRSPs)] which are more widely distributed; (iv) complexity in the distribution and abundance of CSαβ subgroup members; and (v) that putative AMPs are expressed in host-facing life stages and biofluids of key nematode parasites. These data indicate that phylum Nematoda displays diversity in putative AMPs and underscores the need for functional characterisation to reveal their role and importance to nematode biology and host-nematode-microbiome interactions. Nematodes include some of the most abundant animals on Earth, found in almost every natural habitat. Globally, parasitic nematodes cause major impacts to human, animal and plant health. Little is known about how parasitic nematodes interact with microbes despite the microbe-rich environments that many of them inhabit. In other invertebrate animals, Antimicrobial Peptides (AMPs) are critical in defense against pathogenic microbes. By characterising nematode AMP diversity and exploring the role of nematode-derived AMPs we could reveal novel targets for antimicrobial and anthelmintic development. In this study we profiled the distribution of five known AMP groups across the nematode phylum. This homology-directed approach demonstrated that, nematodes appear rich in AMP diversity with major differences in the abundance and distribution of putative AMP-encoding genes across nematode lifestyles and clades. In addition, transcriptomic and proteomic analyses show that many of the identified AMP-encoding genes appear biologically relevant in nematode life stages that interact with the host. This study provides a database of potential nematode-derived AMPs which can drive functional analyses to explore the role of nematode AMPs.
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影响因子：
14.9
作者：
Babicki S;Arndt D;Marcu A;Liang Y;Grant JR;Maciejewski A;Wishart DS
通讯作者：
Wishart DS
影响因子：
--
作者：
Gabler, Felix;Nam, Seung-Zin;Alva, Vikram
通讯作者：
Alva, Vikram
影响因子：
2.9
作者：
Al Souhail Q;Hiromasa Y;Rahnamaeian M;Giraldo MC;Takahashi D;Valent B;Vilcinskas A;Kanost MR
通讯作者：
Kanost MR
影响因子：
5.2
作者：
Lim MP;Firdaus-Raih M;Nathan S
通讯作者：
Nathan S
影响因子：
30.8
作者：
Dieterich, Christoph;Clifton, Sandra W.;Schuster, Lisa N.;Chinwalla, Asif;Delehaunty, Kimberly;Dinkelacker, Iris;Fulton, Lucinda;Fulton, Robert;Godfrey, Jennifer;Minx, Pat;Mitreva, Makedonka;Roeseler, Waltraud;Tian, Huiyu;Witte, Hanh;Yang, Shiaw-Pyng;Wilson, Richard K.;Sommer, Ralf J.
通讯作者：
Sommer, Ralf J.