animal diversity
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2022 ◽  
Author(s):  
Feda S. Aljaser

The development in cryobiology in animal breeding had revolutionized the field of reproductive medicine. The main objective to preserve animal germplasm stems from variety of reasons such as conservation of endangered animal species, animal diversity, and an increased demand of animal models and/or genetically modified animals for research involving animal and human diseases. Cryopreservation has emerged as promising technique for fertility preservation and assisted reproduction techniques (ART) for production of animal breeds and genetically engineered animal species for research. Slow rate freezing and rapid freezing/vitrification are the two main methods of cryopreservation. Slow freezing is characterized by the phase transition (liquid turning into solid) when reducing the temperature below freezing point. Vitrification, on the other hand, is a phenomenon in which liquid solidifies without the formation of ice crystals, thus the process is referred to as a glass transition or ice-free cryopreservation. The vitrification protocol applies high concentrations of cryoprotective agents (CPA) used to avoid cryoinjury. This chapter provides a brief overview of fundamentals of cryopreservation and established methods adopted in cryopreservation. Strategies involved in cryopreserving germ cells (sperm and egg freezing) are included in this chapter. Last section describes the frontiers and advancement of cryopreservation in some of the important animal models like rodents (mouse and rats) and in few large animals (sheep, cow etc).


Diversity ◽  
2021 ◽  
Vol 14 (1) ◽  
pp. 24
Author(s):  
Ondřej Korábek ◽  
Lucie Juřičková ◽  
Adam Petrusek

Sequences of mitochondrial genes revolutionized the understanding of animal diversity and continue to be an important tool in biodiversity research. In the tribe Helicini, a prominent group of the western Palaearctic land snail fauna, mitochondrial data accumulating since the 2000s helped to newly delimit genera, inform species-level taxonomy and reconstruct past range dynamics. We combined the published data with own unpublished sequences and provide a detailed overview of what they revealed about the diversity of the group. The delimitation of Helix is revised by placing Helix godetiana back in the genus and new synonymies are suggested within the genera Codringtonia and Helix. The spatial distribution of intraspecific mitochondrial lineages of several species is shown for the first time. Comparisons between species reveal considerable variation in distribution patterns of intraspecific lineages, from broad postglacial distributions to regions with a fine-scale pattern of allopatric lineage replacement. To provide a baseline for further research and information for anyone re-using the data, we thoroughly discuss the gaps in the current dataset, focusing on both taxonomic and geographic coverage. Thanks to the wealth of data already amassed and the relative ease with which they can be obtained, mitochondrial sequences remain an important source of information on intraspecific diversity over large areas and taxa.


Author(s):  
Nadège Guiglielmoni ◽  
Ramón Rivera-Vicéns ◽  
Romain Koszul ◽  
Jean-François Flot

Non-vertebrate species represent about ~95% of known metazoan (animal) diversity. They remain to this day relatively unexplored genetically, but understanding their genome structure and function is pivotal for expanding our current knowledge of evolution, ecology and biodiversity. Following the continuous improvements and decreasing costs of sequencing technologies, many genome assembly tools have been released, leading to a significant amount of genome projects being completed in recent years. In this review, we examine the current state of genome projects of non-vertebrate animal species. We present an overview of available sequencing technologies, assembly approaches, as well as pre and post-processing steps, genome assembly evaluation methods, and their application to non-vertebrate animal genomes.


2021 ◽  
Vol 499 ◽  
pp. 119564
Author(s):  
Alexander Schneider ◽  
Theo Blick ◽  
Frank Köhler ◽  
Steffen U. Pauls ◽  
Jörg Römbke ◽  
...  

Nature ◽  
2021 ◽  
Author(s):  
Yucheng Wang ◽  
Mikkel Winther Pedersen ◽  
Inger Greve Alsos ◽  
Bianca De Sanctis ◽  
Fernando Racimo ◽  
...  

AbstractDuring the last glacial–interglacial cycle, Arctic biotas experienced substantial climatic changes, yet the nature, extent and rate of their responses are not fully understood1–8. Here we report a large-scale environmental DNA metagenomic study of ancient plant and mammal communities, analysing 535 permafrost and lake sediment samples from across the Arctic spanning the past 50,000 years. Furthermore, we present 1,541 contemporary plant genome assemblies that were generated as reference sequences. Our study provides several insights into the long-term dynamics of the Arctic biota at the circumpolar and regional scales. Our key findings include: (1) a relatively homogeneous steppe–tundra flora dominated the Arctic during the Last Glacial Maximum, followed by regional divergence of vegetation during the Holocene epoch; (2) certain grazing animals consistently co-occurred in space and time; (3) humans appear to have been a minor factor in driving animal distributions; (4) higher effective precipitation, as well as an increase in the proportion of wetland plants, show negative effects on animal diversity; (5) the persistence of the steppe–tundra vegetation in northern Siberia enabled the late survival of several now-extinct megafauna species, including the woolly mammoth until 3.9 ± 0.2 thousand years ago (ka) and the woolly rhinoceros until 9.8 ± 0.2 ka; and (6) phylogenetic analysis of mammoth environmental DNA reveals a previously unsampled mitochondrial lineage. Our findings highlight the power of ancient environmental metagenomics analyses to advance understanding of population histories and long-term ecological dynamics.


2021 ◽  
Vol 9 ◽  
Author(s):  
Axelle Moreau ◽  
Christine Dupuy ◽  
Pierrick Bocher ◽  
Sébastien Farau

The Freshwater Animal Diversity Assessment (FADA) project estimated that freshwater animal species represent 9.5% of the 1.2 million species described. Knowing that freshwater represents only 0.01% of the earth's surface, these wetlands are suitable habitats for a great part of the world's total biodiversity. However, it has been shown that there is a lack of knowledge on these species, including freshwater invertebrates. Nevertheless, they play a key role in the majority of freshwater ecosystems and in their foodweb networks. Freshwater invertebrates are the food resource of many species, such as fish and birds. The knowledge of their morphological, energetic and nutritive characteristics allows a better understanding of their selection by predators (size, energy intake etc.), but also leads to the improvement of wetland management. Although information about freshwater invertebrates exists in literature, they are generally heterogeneous, dispersed and difficult to collect. To facilitate the accessibility of these data and, thus, optimise and accelerate research projects including freshwater invertebrates, we propose a literature review describing 14 morphological and nutritive characteristics (size, dry weight, gross energy, crude protein etc.) for 656 taxa of freshwater invertebrates. This dataset is a review from 104 publications from 1935 to 2020, compiling 14 characteristics when available (size, dry weight, gross energy, crude protein etc.) for 656 taxa of freshwater invertebrates.


2021 ◽  
Author(s):  
◽  
Adolphe Lehavana

In Madagascar, as in several countries in the world, the invasion by four aquatic weeds (Pontederia crassipes Mart. (Pontederiaceae), Pistia stratiotes L. (Araceae), Salvinia molesta D.S. Mitch Salviniaceae) and Azolla filiculoides Lam. (Azollaceae) are among the drivers of environmental and socio-economic deterioration in aquatic ecosystems. Pistia stratiotes was first recorded on the island in the 19th century, and P. crassipes from the beginning of the 20th century, while S. molesta and A. filiculoides were only documented during in the 21st century. From the 1920s, botanists such as Henri Perrier de la Bathie and Raymond Decary were already aware of the dangers caused, in particular by P. crassipes in other countries, and raised the alarm, but little attention has been paid to these species. The aim of the research conducted for this thesis was to determine the distribution, socio-economic and ecological impacts of these four invasive alien aquatic weeds in Madagascar and to make recommendations for their control. First, the distributions of these four aquatic weeds were mapped. This mapping exercise compiled data from different sources including herbarium records, online data and field visits across Madagascar. The mapping study was undertaken from August 2015 to June 2020. Except for mountainous areas above 1800 m (Tsaratanana Massif, Ankaratra Massif and Andringitra Massif) where no data were available, all of Madagascar's bioclimates were invaded by at least one of the four aquatic weeds. In total, at least one species was recorded in 18 of the 22 Regions. Pontederia crassipes was recorded in 13 Regions, S. molesta in 14 Regions, P. stratiotes in 12 Regions, and A. filiculoides in 13 Regions. Herbarium records revealed the oldest record for P. stratiotes to be 1847, 1931 for P. crassipes, 1995 for S. molesta and there were no herbarium specimens for A. filiculoides prior to the start of the current study in 2015. We now know where these four weeds occur and how abundant they are. An objective of this research was to assess the impacts of the four invasive aquatic plants on the socio-economy of the island, mainly on rice production and fishing. Between 2016 and 2019, 102 households in three regions, Soanierana Ivongo, Foulpointe and Antananarivo, were randomly selected and questioned on the impact of these weeds in their aquatic ecosystems and their livelihoods such as fishing and rice growing. Surveys revealed that the four aquatic weeds significantly threatened household activities. On the east coast of Madagascar, the invasions of these four invasive species decreased fish and freshwater shrimp production by 82%. On the high plateau of Madagascar, they reduced rice yield by 30% despite requiring an additional expense of US$ 1,107/ha for control. Although farmers surveyed only used manual control to manage these weeds, they were receptive to other control methods, including integrated control using herbicides and biological control. Another objective of this research was to determine the ecological impacts of the four weeds and specifically if freshwater ecosystem functioning would return after control. To assess the ecological impact, between February 2017 to August 2019, on Lake Antsokafina, the following abiotic and biotic factors were considered: physico-chemistry of water, succession of macrophyte community and animal diversity. With the exception of turbidity, the values of the physico-chemical parameters of the water (pH, electrical conductivity, water temperature and turbidity), were similar between the infested zone and cleared zone. A study on the invasion process of aquatic weeds showed that the plant community succession of the lake changed over time in the areas that had been cleared. The submerged species Ceratophyllum demersum was the pioneer, followed by creeping species such as Echinochloa colona and Ipomoea aquatica, before the area was recolonized by aquatic weeds. Among the aquatic weeds, S. molesta was the most aggressive, covering 92% of the area one year after the start of the experiment. For animal diversity, bird, shrimp and fish community were assessed. The cleaning of the plots in the lake allowed the resumption of fishing activity providing 50 to 200g/catch for shrimp and from 0.25 to 0.5kg/catch for fish per person per day, while no catch was obtained in the areas infested by aquatic weeds were fishermen still attempting to harvest fish/shrimp from the aquatic weed infested areas. Three species of birds, Humblot’s Heron (Ardea humbloti), the white-faced whistling duck (Dendrocygna viduata) and red-billed teal (Anas erythrorhyncha) returned once the areas had been cleared. A manipulated outdoor as descriptor for laboratory experiment was conducted to determine the level and nature of competition of four aquatic weeds species against the indigenous floating fern, Salvinia hastata Desv. (Salviniaceae), using an additive series density model. It was shown that all four invasive species outcompeted S. hastata, with P. crassipes being 24 times more dominant, followed by P. stratiotes at 12 times, S. molesta at 8 times, and finally A. filiculoides at 1.2 times more dominant. This study provided direct evidence of the biodiversity impact of these four species and thus also provided an environmental argument for their control. Based on the findings of this study, a series of recommendations was formulated to manage the invasions of alien species in Madagascar with particular attention to invasive aquatic weeds. These recommendations mainly concern the establishment of management structures and legal instruments such as the creation of a lead government agency at national level and a cross-sectorial invasive species advisory committee, which should review legislation and regulations related to invasive species.


2021 ◽  
Vol 13 (17) ◽  
pp. 9897
Author(s):  
Jinhui Wu ◽  
Haoxin Li ◽  
Huawei Wan ◽  
Yongcai Wang ◽  
Chenxi Sun ◽  
...  

An explicit analysis of the impact for the richness of species of the vegetation phenological characteristics calculated from various remote sensing data is critical and essential for biodiversity conversion and restoration. This study collected long-term the Normalized Difference Vegetation Index (NDVI), the Leaf Area Index (LAI), the Fraction of Absorbed Photosynthetically Active Radiation (FAPAR), and the Fractional Vegetation Cover (FVC), and calculated the six vegetation phenological characteristic parameters: the mean of the growing season, the mean of the mature season, the mean of the withered season, the annual difference value, the annual cumulative value, and the annual standard deviation in the Xinjiang Uygur Autonomous Region. The relationships between the vegetation phenological characteristics and the species richness of birds and mammals were analyzed in spatial distribution. The main findings include: (1) The correlation between bird diversity and vegetation factors is greater than that of mammals. (2) For remote sensing data, FAPAR is the most important vegetation parameter for both birds and mammals. (3) For vegetation phenological characteristics, the annual cumulative value of the LAI is the most crucial vegetation phenological parameter for influencing bird diversity distribution, and the annual difference value of the NDVI is the most significant driving factor for mammal diversity distribution.


2021 ◽  
Author(s):  
Fhulufhelo Vincent Ramukhithi ◽  
Tlou Caswell Chokoe ◽  
Thomas Ronald ◽  
Khoboso Christina Lehloenya

The following are aspects were discussed in this chapter: Domestication of goats – checking on when the goats were first domesticated and for what purposes; Current goat industry - looking on the contribution of goats economically; Conservation of domestic animal diversity - looking on the importance of conserving indigenous animals since some of them are under threat of extinction; Male goat fertility – discussing male fertility indicators; Characterisation approaches - different approaches to be followed when characterising indigenous species; and Phenotypic and genetic characterisation of indigenous goats.


2021 ◽  
Author(s):  
Yasuhiko Chikami ◽  
Miki Okuno ◽  
Atsushi Toyoda ◽  
Takehiko Itoh ◽  
Teruyuki Niimi

The evolution of the functionality of genes and genetic systems is a major source of animal diversity. Its best example is insect sex differentiation systems: promoting male and female differentiation (dual-functionality) or only male differentiation (single-functionality). However, the evolutionary origin of such functional diversity is largely unknown. Here, we investigate the ancestral functions of doublesex, a key factor of insect sex differentiation system, using the apterygote insect, Thermobia domestica, and reveal that its doublesex is essential for only males at the phenotypic level, but contributes to promoting female-specific vitellogenin expression in females. This functional discordance between the phenotypic and transcription-regulatory levels in T. domestica shows a new type of functionality of animal sex differentiation systems. Then, we examine how the sex differentiation system transited from the single-functionality to the dual-functionality in phenotypes and uncover that a conserved female-specific motif of doublesex is detected in taxa with the dual functional doublesex. It is estimated that the role of the sex differentiation system for female phenotypes may have evolved through accumulating mutations in the protein motif structures that led to the enhancement of its transcription-regulatory function.


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