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Reply to: Identification of old coding regions disproves the hominoid de novo status of genes 答复老编码区的鉴定推翻了基因的同源新生状态。
IF 13.9 1区 生物学 Q1 ECOLOGY Pub Date : 2024-08-26 DOI: 10.1038/s41559-024-02515-4
Chunfu Xiao, Fan Mo, Yingfei Lu, Qi Xiao, Chao Yao, Ting Li, Jianhuan Qi, Xiaoge Liu, Jia-Yu Chen, Li Zhang, Tiannan Guo, Baoyang Hu, Ni A. An, Chuan-Yun Li
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引用次数: 0
Spatial bias in the fossil record affects understanding of human evolution 化石记录的空间偏差影响对人类进化的理解
IF 13.9 1区 生物学 Q1 ECOLOGY Pub Date : 2024-08-22 DOI: 10.1038/s41559-024-02524-3
Using modern mammals as analogues, we investigate how spatial bias in the early human fossil record probably influences understanding of human evolution. Our results suggest that the environmental and fossil records from palaeoanthropological hotspots are probably missing aspects of environmental and anatomical variation.
以现代哺乳动物为类比,我们研究了早期人类化石记录中的空间偏差可能如何影响对人类进化的理解。我们的研究结果表明,古人类学热点地区的环境和化石记录可能遗漏了环境和解剖变异的一些方面。
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引用次数: 0
Tripartite origin of the chordate brain 脊索动物大脑的三方起源
IF 13.9 1区 生物学 Q1 ECOLOGY Pub Date : 2024-08-20 DOI: 10.1038/s41559-024-02528-z
Jacob M. Musser
A survey of Amphioxus cell types reveals ancient neurosecretory cells and multiple developmental origins of the chordate brain.
对文昌鱼细胞类型的调查揭示了古老的神经分泌细胞和脊索动物大脑的多种发育起源。
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引用次数: 0
Spatial sampling bias influences our understanding of early hominin evolution in eastern Africa 空间取样偏差影响了我们对非洲东部早期人类进化的理解
IF 13.9 1区 生物学 Q1 ECOLOGY Pub Date : 2024-08-20 DOI: 10.1038/s41559-024-02522-5
W. Andrew Barr, Bernard Wood
The eastern branch of the Eastern African Rift System (EARS) is the source of a large proportion of the early hominin fossil record, but it covers a tiny fraction (ca. 1%) of the continent. Here we investigate how this mismatch between where fossils are preserved and where hominins probably lived may influence our ability to understand early hominin evolution, using extant mammals as analogues. We show that the eastern branch of the EARS is not an environmentally representative sample of the full species range for nearly all extant rift-dwelling mammals. Likewise, when we investigate published morphometric datasets for extant cercopithecine primates, evidence from the eastern branch alone fails to capture major portions of continental-scale cercopithecine cranial morphospace. We suggest that extant rift-dwelling species should be used as analogues to place confidence intervals on hominin habitat reconstructions. Furthermore, given the north–south orientation of the eastern branch of the EARS, morphoclines that are not aligned along this major north–south axis are likely to be poorly sampled by sites in the eastern branch. There is a pressing need for research on the geography of early hominin morphoclines to estimate how morphologically representative the hominin fossil sample from the eastern branch may be. The Eastern African Rift System (EARS) is a key location for the hominin fossil record, but the fact that it samples a narrow section of the continent has long been known. The authors tackle this known (but largely unaddressed) bias by sampling the distribution and morphospace of extant mammals in the rift, showing that the eastern branch of the EARS fails to capture the full range of diversity and morphology. This approach could be helpful to place confidence intervals on extinct habitat reconstructions, controlling for spatial bias.
东非大裂谷系统(EARS)的东部分支是大部分早期类人化石记录的来源,但它只覆盖了非洲大陆的一小部分(约 1%)。在这里,我们以现存哺乳动物为类比对象,研究化石保存地点与类人可能生活地点之间的这种不匹配如何影响我们理解早期类人进化的能力。我们的研究表明,对于几乎所有现存的裂谷栖息哺乳动物来说,EARS 的东部分支并不是一个具有环境代表性的完整物种范围样本。同样,当我们研究已发表的现生崖栖类灵长类动物的形态计量数据集时,仅从东部分支获得的证据无法捕捉到大陆尺度崖栖类头颅形态空间的主要部分。我们建议将现存的裂谷栖息物种作为类比,以确定类人猿栖息地重建的置信区间。此外,考虑到 EARS 东部分支的南北走向,不沿着这条主要南北轴线排列的形态线很可能在东部分支的遗址中采样不足。因此,迫切需要对早期类人猿形态线的地理分布进行研究,以估计东部分支的类人猿化石样本在形态学上的代表性。
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引用次数: 0
Author Correction: Widening global variability in grassland biomass since the 1980s 作者更正:自 20 世纪 80 年代以来全球草地生物量的变异性不断扩大。
IF 13.9 1区 生物学 Q1 ECOLOGY Pub Date : 2024-08-19 DOI: 10.1038/s41559-024-02538-x
Andrew S. MacDougall, Ellen Esch, Qingqing Chen, Oliver Carroll, Colin Bonner, Timothy Ohlert, Matthias Siewert, John Sulik, Anna K. Schweiger, Elizabeth T. Borer, Dilip Naidu, Sumanta Bagchi, Yann Hautier, Peter Wilfahrt, Keith Larson, Johan Olofsson, Elsa Cleland, Ranjan Muthukrishnan, Lydia O’Halloran, Juan Alberti, T. Michael Anderson, Carlos A. Arnillas, Jonathan D. Bakker, Isabel C. Barrio, Lori Biederman, Elizabeth H. Boughton, Lars A. Brudvig, Martin Bruschetti, Yvonne Buckley, Miguel N. Bugalho, Marc W. Cadotte, Maria C. Caldeira, Jane A. Catford, Carla D’Antonio, Kendi Davies, Pedro Daleo, Christopher R. Dickman, Ian Donohue, Mary Ellyn DuPre, Kenneth Elgersma, Nico Eisenhauer, Anu Eskelinen, Catalina Estrada, Philip A. Fay, Yanhao Feng, Daniel S. Gruner, Nicole Hagenah, Sylvia Haider, W. Stanley Harpole, Erika Hersch-Green, Anke Jentsch, Kevin Kirkman, Johannes M. H. Knops, Lauri Laanisto, Lucíola S. Lannes, Ramesh Laungani, Ariuntsetseg Lkhagva, Petr Macek, Jason P. Martina, Rebecca L. McCulley, Brett Melbourne, Rachel Mitchell, Joslin L. Moore, John W. Morgan, Taofeek O. Muraina, Yujie Niu, Meelis Pärtel, Pablo L. Peri, Sally A. Power, Jodi N. Price, Suzanne M. Prober, Zhengwei Ren, Anita C. Risch, Nicholas G. Smith, Grégory Sonnier, Rachel J. Standish, Carly J. Stevens, Michelle Tedder, Pedro Tognetti, G. F. (Ciska) Veen, Risto Virtanen, Glenda M. Wardle, Elizabeth Waring, Amelia A. Wolf, Laura Yahdjian, Eric W. Seabloom
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引用次数: 0
Loss of sex in brown algae 褐藻失去性别
IF 13.9 1区 生物学 Q1 ECOLOGY Pub Date : 2024-08-16 DOI: 10.1038/s41559-024-02497-3
Christoph R. Haag
An analysis of phenotypic and genomic changes that accompany the loss of sex in brown algae reveals shared features with transitions to asexuality in animals and plants.
通过分析褐藻失去性别后的表型和基因组变化,发现了动物和植物向无性过渡的共同特征。
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引用次数: 0
Single-cell analysis of the amphioxus hepatic caecum and vertebrate liver reveals genetic mechanisms of vertebrate liver evolution 文昌鱼肝盲肠和脊椎动物肝脏的单细胞分析揭示了脊椎动物肝脏进化的遗传机制
IF 13.9 1区 生物学 Q1 ECOLOGY Pub Date : 2024-08-16 DOI: 10.1038/s41559-024-02510-9
Baosheng Wu, Wenjie Xu, Kunjin Wu, Ye Li, Mingliang Hu, Chenguang Feng, Chenglong Zhu, Jiangmin Zheng, Xinxin Cui, Jing Li, Deqian Fan, Fenghua Zhang, Yuxuan Liu, Jinping Chen, Chang Liu, Guang Li, Qiang Qiu, Kai Qu, Wen Wang, Kun Wang
The evolution of the vertebrate liver is a prime example of the evolution of complex organs, yet the driving genetic factors behind it remain unknown. Here we study the evolutionary genetics of liver by comparing the amphioxus hepatic caecum and the vertebrate liver, as well as examining the functional transition within vertebrates. Using in vivo and in vitro experiments, single-cell/nucleus RNA-seq data and gene knockout experiments, we confirm that the amphioxus hepatic caecum and vertebrate liver are homologous organs and show that the emergence of ohnologues from two rounds of whole-genome duplications greatly contributed to the functional complexity of the vertebrate liver. Two ohnologues, kdr and flt4, play an important role in the development of liver sinusoidal endothelial cells. In addition, we found that liver-related functions such as coagulation and bile production evolved in a step-by-step manner, with gene duplicates playing a crucial role. We reconstructed the genetic footprint of the transfer of haem detoxification from the liver to the spleen during vertebrate evolution. Together, these findings challenge the previous hypothesis that organ evolution is primarily driven by regulatory elements, underscoring the importance of gene duplicates in the emergence and diversification of a complex organ. Comparative analysis of single-cell data from the amphioxus hepatic caecum and the liver of several vertebrates shows how genome duplication contributes to cellular diversification and functional complexity of the vertebrate liver.
脊椎动物肝脏的进化是复杂器官进化的一个典型例子,但其背后的驱动遗传因素仍然未知。在这里,我们通过比较文昌鱼肝盲肠和脊椎动物肝脏,研究了肝脏的进化遗传学,并考察了脊椎动物内部的功能转变。利用体内和体外实验、单细胞/细胞核RNA-seq数据和基因敲除实验,我们证实文昌鱼肝盲肠和脊椎动物肝脏是同源器官,并表明两轮全基因组复制产生的ohnologues极大地促进了脊椎动物肝脏功能的复杂性。两个ohnologues,即kdr和flt4,在肝窦内皮细胞的发育过程中发挥了重要作用。此外,我们还发现凝血和胆汁生成等与肝脏相关的功能是逐步进化的,其中复制基因发挥了关键作用。我们重建了脊椎动物进化过程中血红素解毒功能从肝脏转移到脾脏的基因足迹。这些发现共同挑战了之前关于器官进化主要由调控元件驱动的假说,强调了基因复制在复杂器官的出现和多样化过程中的重要性。
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引用次数: 0
Gene duplication contributes to liver evolution 基因复制有助于肝脏进化
IF 13.9 1区 生物学 Q1 ECOLOGY Pub Date : 2024-08-16 DOI: 10.1038/s41559-024-02509-2
Francisca Hervas-Sotomayor, Florent Murat
A cross-species analysis reveals how whole genome duplication underlies the cellular diversification of the vertebrate liver.
跨物种分析揭示了全基因组复制是脊椎动物肝脏细胞多样化的基础。
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引用次数: 0
Parallel loss of sexual reproduction in field populations of a brown alga sheds light on the mechanisms underlying the emergence of asexuality 褐藻田间种群有性生殖的平行丧失揭示了无性生殖出现的内在机制
IF 13.9 1区 生物学 Q1 ECOLOGY Pub Date : 2024-08-16 DOI: 10.1038/s41559-024-02490-w
Masakazu Hoshino, Guillaume Cossard, Fabian B. Haas, Emma I. Kane, Kazuhiro Kogame, Takahiro Jomori, Toshiyuki Wakimoto, Sylvain Glemin, Susana M. Coelho
Sexual reproduction is widespread, but asexual lineages have repeatedly arisen from sexual ancestors across a wide range of eukaryotic taxa. The molecular changes underpinning the switch to asexuality remain elusive, particularly in organisms with haploid sexual systems. Here we explore independent events of loss of sex in the brown alga Scytosiphon, examine the proximate and evolutionary mechanisms involved, and test the importance of sexual conflict on gene expression changes following loss of sex. We find that asexual females (‘Amazons’) lose ability to produce sex pheromone and, consequently, are incapable of attracting males, whereas they gain rapid parthenogenic development from large, unfertilized eggs. These phenotypic changes are accompanied by convergent changes in gene expression. Decay of female functions, rather than relaxation of sexual antagonism, may be a dominant force at play during the emergence of asexuality in haploid sexual systems. Moreover, we show that haploid purifying selection plays a key role in limiting the accumulation of deleterious alleles in Amazons, and we identify an autosomal locus associated with the Amazon phenotype. The sex chromosome, together with this autosomal locus, may underlie the switch to obligate asexuality in the Amazon populations. Analysis of gamete transcriptomes of sexual and asexual individuals of the brown alga Scytosiphon shows decay of female functions but no signature of relaxation of sexual antagonism in the evolution of asexual reproduction in this haploid sexual system.
有性生殖非常普遍,但在众多真核生物类群中,无性系却一再从有性祖先中产生。特别是在具有单倍体有性系统的生物中,无性繁殖的分子变化仍然难以捉摸。在这里,我们探讨了褐藻 Scytosiphon 中丧失性别的独立事件,研究了其中涉及的近因和进化机制,并检验了性冲突对丧失性别后基因表达变化的重要性。我们发现,无性雌藻("Amazons")失去了产生性信息素的能力,因此无法吸引雄藻,而它们却能从大的未受精卵中获得快速孤雌生殖发育。这些表型变化伴随着基因表达的趋同变化。在单倍体有性系统中,雌性功能的衰退,而不是性对抗的放松,可能是无性出现过程中的主导力量。此外,我们还发现单倍体纯化选择在限制亚马逊雌性中有害等位基因的积累方面发挥了关键作用,并确定了一个与亚马逊表型相关的常染色体位点。性染色体和这个常染色体位点可能是亚马逊种群转为强制性无性繁殖的基础。
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引用次数: 0
Atolls are vital for seabirds and vice versa 环礁对海鸟至关重要,反之亦然
IF 13.9 1区 生物学 Q1 ECOLOGY Pub Date : 2024-08-15 DOI: 10.1038/s41559-024-02518-1
Ruth E. Dunn
Predictive modelling based on a global dataset reveals that atolls sustain 31.2 million breeding tropical seabirds. This vast assemblage of birds probably acts as a major nutrient pump, which highlights the need to conserve atoll ecosystems into the future.
基于全球数据集的预测模型显示,环礁上有 3120 万只热带海鸟在繁殖。这一庞大的鸟类群体很可能是一个主要的营养泵,这凸显了未来保护环礁生态系统的必要性。
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引用次数: 0
期刊
Nature ecology & evolution
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