Tuesday 27 August 2024

Oceanitis abyssalis: A new species of deep-sea wood-digesting Fungus from the Northwest Pacific abyssal plain.

The abyssal seafloor is an extreme environment, where organisms have to cope with high pressures, low oxygen and nutrient levels, permanent darkness, and low temperatures (with islands of extremely high temperatures around hydrothermal vents). Despite these obstacles, these deep-sea environments are home to a surprising range of organisms, including a number of Fungi which specialize in the decomposition of wood, a material of terrestrial origin. Do date only six species of obligate deepsea Fungi (i.e. Fungi found only in deep-sea environments) have been described, Alisea longicollaAllescheriella bathygenaBathyascus vermisporusOceanitis scuticellaPericonia abyssa, and Abyssomyces hydrozoicus, of which all except Abyssomyces hydrozoicus are wood-digesting species.

In a paper published in the journal Phytotaxa on 27 August 2024, Yukiro Nagano of the Marine Biodiversity and Environmental Assessment Research Center of the Japan Agency for Marine-Earth Science and Technology, and the Advanced Institute for Marine Ecosystem Change, Mohamed Adbul-Wahab of the Department of Botany and Microbiology at Sohag University, Ryota Nakajima, also of the Marine Biodiversity and Environmental Assessment Research Center of the Japan Agency for Marine-Earth Science and Technology, and Akinori Yabuki, also of the Advanced Institute for Marine Ecosystem Change, describe a new species of deep-sea wood-digesting Fungus from the Northwest Pacific abyssal plain.

The new species is placed in the genus Oceanitis on the basis of a genetic analysis, and given the specific name abyssalis in reference to the environment in which it was found, the abyssal plain of the Northwest  Pacific close to the Kuroshio Extension current boundary. The species is described on the basis of a colony found growing on a branch of wood with bark still attached, from a depth of 5707 m.

Oceanitis abyssalis (TNS-F-70722, holotype): Ascomata on wood. Nagano et al. (2024).

Oceanitis abyssalis produces fleshy yellowish or brownish ascomycota (spore-producing bodies) on the surface of the wood, which are yellowish in colour, 1.2-1.6 mm high and 0.98-1.2 mm in diameter. It is very similar, both morphologically and genetically, to samples of Oceanitis scuticella collected from the Kuril-Kamchatka Trench, but is morphologically different from the original description of Oceanitis scuticella, which was based upon material from bathyal depths near the islands of Vanuatu, which was not genetically analysed, and is no longer available (to date, no deep-sea Fungus has been cultured in the lab). For this reason, Nagano et al. question whether the Kuril-Kamchatka Trench Oceanitis scuticella material should be placed in this species, suggesting that Oceanitis cf abyssalis might be a better designation for the time being.  

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Monday 26 August 2024

Magnitude 5.4 Eearthquake off the coast of Portugal.

The Centre Seismologique Euro-Méditeranéen  recorded a Magnitude 5.4 Earthquake at a depth of 16 km off the west coast  of Portugal, about 68 km to the west of the town of Sines, slightly after  5.10 am local time (slightly after 4.10 am GMT) on Monday 26 August 2024. There are no reports of any damage or casualties associated with this event, though it was felt across the Madeira Islands group, as well as in parts of the Canary Islands.

The approximate location of the 26 August 2024 Earthquake. USGS.

The Earthquake occurred close to the Cape St. Vincent Ridge, which runs along the boundary between the African and European plates to the east of the Mid-Atlantic Ridge. This is currently an area of expansion, with the two plates moving apart along this part of the boundary and new seafloor being created by the upwelling of magma from the mantle and its extrusion as a new area of crustal material, the Azores Microplate. This is not a smooth process, and can lead to occasional Earthquakes.

The location of the Cape St. Vincent Ridge relative to the Mid-Atlantic Ridge. Martins et al. 2008.

Witness accounts of Earthquakes can help geologists to understand these events, and the structures that cause them. If you felt this event you can report it to the Centre Seismologique Euro-Méditeranéen here.

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Felis chaus: Observations of the Jungle Cat in by the lower reaches of the Jordan River, Jordan.

The Jungle Cat, Felis chaus, is a medium-sized Felid found in wetlands across the Middle East, Caucasus region, South and Southeast Asia, and southern China. It is not currently considered globally threatened, but is known to be in decline across its range due to the ongoing loss of wetland habitats. In Jordan the species is currently considered to be Critically Endangered, with the last known record of the species being two dead specimens found in February 1998, on Al–Baqurah Island in the Yarmouk River Valley. However, much of the key environment for the species is found along the Jordan Valley, much of which has been designated a military zone with very limited access.

In a paper published in the Journal of Threatened Taxa on 26 July 2024, freelance conservationists Ehab Eid and Mohammed Farid Alayyan of Amman in Jordan present new evidence for the presence of the Jungle Cat in the Jordan Valley of Jordan, based upon camara trap evidence gathered during a survey targeting the Golden Jackal, Canis aureus.

The camera traps were placed on a private farm growing Citrus fruit at Sheikh Hussein, in the north of the Ghor region, between the Sea of Galilee and the Dead Sea. The boundaries of the farm extend to the Jordan River, where there is an area of wetlands dominated by Common Reeds Phragmites communis, Cattails, Typha domingensis, and Athel Trees, Tamarix aphylla. The area is also home to other wetland Plants, including Sieber’s Wormwood, Artemisia sieberi, Christ’s Thorn Jujube, Ziziphus spina-christi,  Arabian  Fagonia, Fagonia  arabica,  and  Common  Mallow, Malva sylvestris. The area is an important refuge for migratory Birds such as Ducks, Herons, Egrets, and Storks, but is not subject to any form of protection, with the water being affected by herbicide and fertilizer run-off from local farms, and Reed-beds subjected to frequent clearing by farmers who perceive them as a fire-hazard.

Eid and Alayyan placed four camera traps in the Reed beds between June 2020 and 28 February 2022. There were mounted between 40 and 50 cm above the ground, and faced both north and south, to avoid false records during  sunrise  and  sunset. No bait was placed, and the cameras were checked monthly.

During this period, five observations of Jungle Cats were made, with all four cameras making observations. The first observation was made on 12 January 2021 at 12.58 in the afternoon, the second on 17 January 2021 at 9.33 in the evening, the third on 11 April 2021 at 21.35 in the evening, the forth on 3 September 2021 at 10.41 in the evening, and the final observation on 30 January 2022 at 2.12 in the morning.

Jungle Cats photographed in the study area between 12 January 2021 and 30 January 2022. Ehab Eid in Eid & Alayyan (2024).

The camera traps also imaged several other species, including Golden Jackal, Canis aureus, Egyptian Mongoose, Herpestes ichneumon, Wild Boar, Sus scrofa, Red Fox, Vulpes vulpes, and numerous Rodents and Birds, as well as four feral Dogs living on the farm.

To the best of Eid and Alayyan's knowledge, this is the first camera trap survey carried out in the Jordan Valley, and has established the presence of the Jungle Cat in Jordan 22 years after the previous  record, of dead Animals, although the data gathered was not sufficient to determine the number of Cats in the area.

Despite the heavy agricultural activity in the area, it appears to remain a suitable environment for Jungle Cats, with dense vegetation along riverbeds and an abundant supply of Rodents, the favoured prey of Cats.

Jungle Cats were only observed a very limited time, despite the long duration of the study, although this is at least in part due to the dense vegetation in the study area, which proved a general hindrance to observations, interfering with observations of Animals and producing numerous observations of swaying Plants. However, Eid and Alayyan suggest that it is this dense vegetation which makes the environment suitable for Jungle Cats, which are known to be averse to encounters with Humans. 

While Jungle Cats are still persisting in the Jordan Valley, their habitat is threatened by Human activities, with agricultural expansion altering the environment, causing the Reed-beds to fragment and degrade. 

During the time when the study was being carried out, a Jungle Cat was also recorded at Al-Mashare’e, about 6 km to the south of the study area, where it became entangled in a Chicken-protection net, being videoed before escaping. Based upon this, Eid and Alayyan propose that a citizen-science approach, in which residents of the Jordan Valley are encouraged to report sightings of Jungle Cats, may reveal more about the presence of, and threats faced by, the species in the region.

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Saturday 24 August 2024

Newly discovered diamond from Botswana is thought to be the third largest ever found.

The Lucara Diamond Company has announced discovering what is believed to be the third largest diamond ever found at its Karowe Mine in eastern Botswana, in a press release issued on 21 August 2024. The diamond weights 2492 carats (498.4 grams), making it larger than the previous third largest diamond ever discovered, the 1758 carat Sewelô Diamond, which was discovered at the Karowe Mine in 2019.

The new, and as yet unnamed, diamond revealed by Lucara Mining thing month. Lucata Mining.

The largest diamond ever found is the Sergio Diamond, found at Lençóis in Bahia State Brazil, in 1895, by Sérgio Borges de Carvalho, after whom it is named, which weighed 3167 carat (633.4 g). Surprisingly, the Sergio Diamond was not found within a diamond mine, but on the surface. The Sergio Diamond was a carbonado, a type of diamond with a black colour, a micro-porous structure, and a high graphite and amorphous carbon content, as well as frequently containing inclusions of other minerals or metals. Notably, some of the inclusions found in carbonado diamonds are extremely rare on Earth, and they have very low proportions of the isotope carbon¹³ compared to other diamonds, as well as radioactive inclusions, again not found in other diamonds. All caronado diamonds subjected to uranium-lead isotope dating have been found to be about 3 billion years old, and almost all carbonado diamonds come from two locations, Brazil and the Central African Republic. This has led to speculation that these diamonds are derived from an extra-terrestrial body which impacted the Earth in the distant past, although no hypothesis as to how such a body could have formed has ever gained widespread acceptance. Because of their hardness, carbonado diamonds were widely sought for use in drill bits in the nineteenth century, although they have been replaced by more modern materials today. Despite its exceptional size (most carbonado diamonds are smaller than a pea), the Sergio Diamond was sold for £6400 in London in September 1895, then broken up to make diamond drill bits.

An engraving of the Sergio Diamond published in Popular Science Monthly in 1906. Wikimedia Commons.

The second largest diamond ever discovered, and the largest gemstone-quality diamond, was rhe Cullinan Diamond found at Cullinan in what is now Gauteng Province, South Africa, in April 1905, which weighed 3106 carat (621.2 g) when it was found. The Cullinan Diamond was purchased by Louis Botha, the Prime Minister of the Transvaal Colony, and given to the British King Edward VII, who had it cut into nine large gemstones and a number of smaller fragments known as 'The Brilliants'. The largest of these cut stones, known as Cullinan I or the Star of Africa, has a mass of 530.4 carat, and is mounted on the Sceptre with Cross, part of the British Crown Jewels, which is carried by the monarch at their coronation.

(Left) The uncut Cullinan Diamond in 1908. (Right) The Star of Africa Diamond in the Sceptre with Cross in 1919. Wikimedia Commons.

Six of the eight largest diamonds ever dug up have been discovered at the Karowe Mine since 2015; this is not a coincidence. but marks the introduction of new technology pioneered at the Karowe Mine. Modern mines typically use crushing machinery to extract diamonds from their parent rock, but this is generally thought to break up a significant proportion of larger diamonds. The Karowe Mine uses X-ray fluorescence technology to scan ore before it passes into the crushing equipment, thus allowing for the machinery to be stopped and particularly large diamonds to be recovered. 

Flow chart showing the processing and sorting of diamonds at the Karowe Mine. Lucara Diamonds.

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Using microfossils and pollen to determine the origin of a set of stocks in the collection of the Rijksmuseum, Amsterdam.

In 2019 a man donated a set of stocks to the Rijksmuseum in Amsterdam, which he claimed his  grandfather had acquired in the  1970s from a farm in Zeeland Province.  The museum put the stocks on display in 2021, as part of an exhibition about the Dutch colony in Brazil between 1630 and 1654. In 2023, the stocks were loaned to the United Nations in New York, where they formed part of an exhibition about slavery in Dutch colonies. However, during the New York exhibition, questions were raised as to whether the stocks had ever actually been to South America. A radiocarbon analysis suggested that the tree from which the stocks had been made was probably felled in about 1800, with the stocks probably being made in the first quarter of the nineteenth century. Furthermore, DNA testing established that the wood came from a lineage of Oak trees, which today is found growing in Europe between northern Spain in in the south and southern Scandinavia in the north. 

In a paper published in the journal Review of Palaeobotany and Palynology on 10 August 2024, Hans Piena of the Vrije Universiteit Amsterdam, the Dutch Open Air Museum, and the Royal Netherlands Historical Society, Bas van Geel of the University of Amsterdam, Tom Hakbijl of the Naturalis Biodiversity Center, Arie Kalis of Goethe University, Pim van der Knaap and Jacqueline van Leeuwen, also of the University of Amsterdam, and Kees Nooren of Utrecht University, describe the results of a study which looked at palynological evidence (preserved pollen and spores) to develop a forensic picture of the environment in which the stocks had been used.

Oak stocks in the collection of the Rijksmuseum in Amsterdam (Inv.nr. NG.2019–502). Measurements: 265 × 37.5 × 23 cm. Piena et al. (2024).

Sediment was extracted from holes and cracks in the stocks, and analysed for palynomorphs (pollen, algae and spores), and the surface of the stocks were analysed for surface wear and other traces of use.

The stocks comprise two oak beams resting on a pair of cross-braces. Each beam has nine semicircular openings, which correspond to similar openings on the other beam, with the pair making a hole. on the other beam. At one end of the beams is an iron hinge, at the other an obliquely worn padlock eye. The insides of the holes have been smoothed to a shiny surface, suggesting that the stocks were used frequently. The upper surface of the beams are also smooth, having apparently been rubbed frequently with sand; cracks and small holes on this surface were filled with sediment. There are also a large number of chopping and cutting marks on the upper surface, in places forming a chequerboard pattern. The underside shows no signs of similar wear or sanding, and is largely free of sediment. 

The two cross-braces yielded traces of attacks by Fungi and Woodworm, which are not seen on the beams, and are interpreted by Piena et al. as feet upon which the stocks sat. They were previously interpreted as side braces in the two slavery exhibitions, which would have led to the stocks being horizontal, holding prisoners seated on the floor. Under Piena et al.'s interpretation, the holes would have been vertical, forcing anyone  trapped in the stocks to stand.

The number '22' has been written on the upper surface of the stocks in blue chalk. The fact that this has not been rubbed of strongly suggests that it was written after the stocks ceased being used, possibly as part of an inventory process or auction sale. Before the twentieth century, chalk could be produced in few colours other than white, but blue is one of those colours, making it possible the number was written in the nineteenth century. 

The contents of a sediment-filled hole on the upper surface of the stocks were analysed for siliceous microfossils. This produced about 500 000 Diatoms per gram of sediment, with fifty different species identified. These were largely indicative of a mesotrophic freshwater environment, such as a slow-flowing stream or ditch.  This included the epiphytic Diatom Cocconeis placentula, which grows on the surface of aquatic Plants or Macroalgae. No marine or brackish water species were found. Phytoliths (opaline silica crystals which build up in the leaves of Plants as dissolved monosillicic acid taken up with groundwater and precipitated out as water is lost from the leaves via transpiration) associated with Grasses were found, but none associated with Palms. Also present in great numbers were the stomatocysts of Chrysophytes (Golden-brown Algae), which are also typical of freshwater environments, with about 460 000 stomatocysts per gram of sediment. Also present were samples of the freshwater Alga Spirogyra and pollen of the freshwater Plant Myriophyllum alterniflorum. All of these species are indicative of freshwater ecosystems, but otherwise fairly cosmopolitan, and can be found in tropical and temperate environments.

Samples of pollen and spores were extracted from eight different cracks and holes on the surface of the stocks, with five samples being extracted from one large hole. A total of 7106 individual specimens were found, including 142 taxa of spores and pollen, from 18 trees, 21 shrubs, 91 herbs, 5 Ferns, and 7 types of Fungi, Algae, and Moss. This high proportion of herb pollen is likely to be indicative of an open agricultural environment, probably with low nutrient levels. This contained only a small proportion of Chenopodiaceaetype and Plantago maritima-type pollen, making a salt marsh environment unlikely. Many of the pollen types are cosmopolitan in distribution, but others, including Armeria, Cistaceae, Erica arborea, Lavandula, Nerium oleander, Olea, Pinus pinaster, Quercus ilex, Urtica pilulifera, Eryngium tenue, Corrigiola telephiifolia, and Vitis vinifera, are typical of the Mediterranean region, while others, including Erica australis, Erica umbellata, Cistus albidus, Cistus populifolius, Cistus ladanifer, and Halimium halimifolium, are found only on the western Iberian Peninsula and in western North Africa. Notably, the pollen of Cedrus and Chamaerops, which are more-or-less ubiquitous in recent North African sediments, were absent. 

Many pollen samples from cereal species showed signs of heat-deformation, something which has previously been observed in samples from medieval cesspits, and which is thought to be associated with bread or porridge-making.

The stocks also show signs of Insect damage in places, and yielded some Insect samples. The Insect damage comes in two forms. The first of these is wide flat tunnelling in the cambium layer, which would have underlain the bark, and which is caused by the larvae of Buprestid or Cerambycid Beetles. The second form of damage is a series of small boreholes likely to have been caused by Anobium punctatum, a small boring Beetle commonly associated with wooden beams and objects in Europe, which favours humid indoor environments. The Insect remains found belong to Ptinus fur or Ptinus clavipesAdistemia watsoniLatridius minutus, and two unidentified members of the Corticariinae. Adistemia watsoni is a species native to South America, but which had spread to Europe by the nineteenth century. The Spider Beetles, Ptinus fur and Ptinus clavipes, are typically found in indoor settings, feeding on Human food or other Pland and Animal remains. A small Mite belonging to the family Macrochelidae was also found. This assemblage has been found in other archaeological settings, and is considered typical of an indoor environment with mouldy food, litter and/or hay, and possibly excrement. 

The underside of one of the cross-braces, which is worn and shows traces of Fungal and Woodworm attack. Piena et al. (2024).

Artefacts will typically begin to assemble traces and small microparticles of biological origin from the moment when they are made, enabling researchers to build up a life history of  objects of interest. Examination of the assemblage associated with the Rijksmuseum stocks showed no evidence of these ever having visited South America, despite earlier interpretations.

A prior DNA analysis of the wood suggests that the stocks were made from a tree which probably grew somewhere between northern Spain and southern Scandinavia, and it seems unlikely that it was transported for any great distance before being worked. This is because only wood with a high market value is typically shipped for any great distance, which effectively means wood with a straight grain and few knots. The wood from which the stocks are made has an irregular grain pattern and is somewhat knotty, which would generally only be used if the desired task required wood to be sourced locally. The stocks also show signs of having been worked using techniques typical for green wood usage, which again makes it highly unlikely that the wood was transported any distance before being used.

The style of the stocks, with holes on top forcing the prisoner(s) to stand is unusual, but is known to have been used widely on the Iberian Peninsula during the early nineteenth century, leading Piena et al. to conclude that the stocks are likely to be of Iberian origin.

The samples collected can be expected to have started to accumulate as soon as the stocks were  made, and to have continued to accumulate throughout their existence. Samples were taken from locations all over the stocks, and in one in one location, a hole, a succession of samples were taken from different depths. Despite this, other than samples from the lower side being dusty and samples from the upper side being sandy, there was remarkably little difference in the samples, suggesting that the stocks spent much of their lives in a single environment. 

The pollen samples collected from the stocks suggest that this environment was in western Iberia, while the DNA collected from the wood suggests that it grew no  further south than northern Iberia, which is at least a neighbouring region. 

The Insects collected from the stocks suggest a humid, indoor environment, while the presence of cereal pollen, and good preservation of the Diatoms and pollen suggest that the sediment in which they were preserved did was not exposed to moisture for long periods.

Based upon this evidence, Piena et al. consider two separate scenarios, which could account for the accumulation of microfossils seen on the stocks. 

It is possible that the entire assemblage is post-use, representing a time when the stocks had been abandoned in a slow-moving stream or ditch, in an open agricultural environment with poor soils and intensive Rye cultivation, an environment typical of the Iberian Peninsula in the nineteenth century. This scenario is supported by the good preservation of pollen and Diatoms, the type of sediment found, and the low number of Fungal spores, but contradicted by the presence of sediment only on the upper side of the stocks, not on the underside or in the cavities between the beams and cross-braces. 

Alternatively, the large amount of pollen from wild Grasses and Cereals, particularly Rye, makes it possible that the stocks were used in an indoor environment where Grass and Rye straw were used as litter. This is supported by the types of spores present, which are all from species associated with decaying Plant matter or Animal dung (including Human). This is consistent with the idea that the stocks were used in a humid, indoor environment. The presence of Fungal and Woodworm damage to the underside of the stocks would be consistent with them sitting on a moist floor covered with a litter of straw and hay, possibly in a stable or dungeon (with the latter being more likely, given the presumed purpose of the stocks). Thus the deformed Cereal pollen could have come from bread or porridge fed to prisoners, or their faeces if they were forced to produce this while trapped in the stocks, and the sand in the cracks on the upper surface would be consistent with frequent scrubbing of this surface. 

Historically, most stocks around the world were positioned on their sides, with prisoners thus able to lie down. The Rijksmuseum stocks, however, are of a far rarer design, which held the prisoner in an upright position, forcing them to stand upright. Such stocks were often ued in conjunction with a neck brace on a wall, so that prisoners could be held upright and restrained. This was once common in Spanish prisons, providing a likely origin for the stocks. Notably, such stocks were particularly common during the Peninsula War of 1807-1814 and the Spanish War of Independence of 1814-1823, both wars which were noted for numerous attocities. In other settings, however, stocks of this type were combined with a latrine bench with holes, with prisoners being held in a sitting position.

Por liberal?, 1814–1823, by Francisco de Goya y Lucientes, showing a  woman trapped in a horizontal type of stocks. Piena et al. (2024).

When obtained, little was known about the set of stocks present in the collection of the Rijksmuseum. They were identified as having (recently) come from Zeeland, and were considered appropriate for an exhibition about the Dutch colony in Brazil between 1630 and 1658. Subsequent investigations have suggested that they were most likely made in Europe around 1800, and never taken to South America. Subsequent investigations by Piena et al. have narrowed the likely point of origin to the western Iberian Peninsula, and suggest that they were used in a moist indoor environment, most likely a dungeon.

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