Spatiotemporal changes in early human land use during the Holocene throughout the Yangtze River Basin, China

The contribution of early human activity to the increase in atmospheric CH4 content during the middle to late-Holocene is still debated. The quantitative reconstruction of past changes in land use by early rice agriculture is a key to resolving the issue, because large uncertainties still exist in current prehistoric land use estimates, owing to a lack of direct records. In this study, we used the combination of archaeological data (the area and distribution of archaeological sites) and an improved prehistoric land use model (PLUM) to determine the spatiotemporal changes in land use by rice agriculture throughout the Yangtze River Valley, China, which was the origin and centre of the development of rice cultivation. The results indicate that the area devoted to rice agriculture increased during 10–2 ka BP, and that a significant increase occurred at ~5 ka BP accompanied by a spatial expansion from the northern part of the valley to the entire valley. However, the rice land use area decreased slightly during 4–3 ka BP but then increased after 3 ka BP. We estimate that the CH4 emissions from the rice cultivated area in the Yangtze River Valley increased from ~0.001 (±0.001) to ~1.3 (±0.6) Tg/year during 10–2 ka BP, and the resulting atmospheric CH4 concentrations increased from ~0.004 (±0.002) to ~4.1 (±2.0) ppb, which accounted for 3 (±2)–9 (±5) % of the ‘anomalous atmospheric CH4 increase’ during 5–2 ka BP.

The Effect Of Zakat Knowledge and Religiusity on Community Awareness to Paying Zakat for Rice Agriculture (Case Study: Lembah Village, Dolo, Madiun Indonesia)

The population of Lembah Village, Dolopo District, Madiun Regency is 4,006 people, and 1,023 residents work as farmers, and the area of rice fields is 216 Ha. Seeing the extent of available land shows that zakat's potential in the agricultural sector, especially rice in the region, is quite significant. However, the reality in people's lives, especially in Lembah Village, has not been fully implemented to pay zakat on agriculture. It is due to the lack of public knowledge regarding zakat, especially zakat on rice farming. So far, the management of zakat in this sector has not been entirely appropriately managed. The zakat collected so far has not been submitted to an official institution established by the government. So far, zakat payments for agricultural products are only based on public awareness, and it is not uncommon for those who do not pay zakat for agricultural products. This research focuses on the following problems: 1. How does knowledge of zakat affect public awareness in paying zakat on rice farming in Lembah Village? 2. How does religiosity affect public awareness in paying zakat on rice farming in Lembah Village? 3. How is the effect of knowledge of zakat and religiosity simultaneously on public awareness in paying zakat for rice farming in Lembah Village? The research used is quantitative. The population was 1,023, and the sample consisted of 100 farmers in Lembah Village, Dolopo District, using non-probability sampling techniques through purposive sampling. The data collection technique used a questionnaire, while the data analysis used multiple linear analysis. Based on the results of data analysis conducted by researchers, it can be concluded that: Knowledge of zakat has a significant effect on public awareness with a tcount> t-table, 3.278> 1.660 and multiple linear regression of 0.320. Religiosity has no significant effect on public awareness with the value of tcount> t-table, 1.757> 1.660 and multiple linear regression of 0.217. Knowledge of zakat and religiosity together significantly affects public awareness with the value of f count, 11.688> 3.09 and R Square's value of 0.441.

Anthropogenic impacts on Late Holocene land-cover change and floristic biodiversity loss in tropical southeastern Asia

Southern China and Southeast Asia witnessed some of their most significant economic and social changes relevant to human land use during the Late Holocene, including the intensification and spread of rice agriculture. Despite rice growth being associated with a number of earth systems impacts, how these changes transformed tropical vegetation in this region of immense endemic biodiversity remains poorly understood. Here, we compile a pollen dataset incorporating ∼150,000 identifications and 233 pollen taxa to examine past changes in floral biodiversity, together with a compilation of records of forest decline across the region using 14 pollen records spanning lowland to mountain sites. Our results demonstrate that the rise of intensive rice agriculture from approximately 2,000 y ago led not only to extensive deforestation but also to remarkable changes of vegetation composition and a reduction in arboreal diversity. Focusing specifically on the Tertiary relic tree species, the freshwater wetland conifer Glyptostrobus (Glyptostrobus pensilis), we demonstrate how key species that had survived changing environmental conditions across millions of years shrank in the face of paddy rice farming and human disturbance.

Population dynamics in the Japanese Archipelago since the Pleistocene revealed by the complete mitochondrial genome sequences

The Japanese Archipelago is widely covered with acidic soil made of volcanic ash, an environment which is detrimental to the preservation of ancient biomolecules. More than 10,000 Palaeolithic and Neolithic sites have been discovered nationwide, but few skeletal remains exist and preservation of DNA is poor. Despite these challenging circumstances, we succeeded in obtaining a complete mitogenome (mitochondrial genome) sequence from Palaeolithic human remains. We also obtained those of Neolithic (the hunting-gathering Jomon and the farming Yayoi cultures) remains, and over 2,000 present-day Japanese. The Palaeolithic mitogenome sequence was not found to be a direct ancestor of any of Jomon, Yayoi, and present-day Japanese people. However, it was an ancestral type of haplogroup M, a basal group of the haplogroup M. Therefore, our results indicate continuity in the maternal gene pool from the Palaeolithic to present-day Japanese. We also found that a vast increase of population size happened and has continued since the Yayoi period, characterized with paddy rice farming. It means that the cultural transition, i.e. rice agriculture, had significant impact on the demographic history of Japanese population.

The Probable Critical Role of Early Holocene Monsoon Activity in Siting the Origins of Rice Agriculture in China

The long process of rice domestication likely started 10,000–8,000 years ago in China, and the pre-existing hunter-gatherer communities gradually adopted more sedentary lifestyles with the dependence of rice agricultural economies. The archeological evidence builds a strong case for the first domestication of rice to Oryza sativa centered in the Middle-Lower Yangtze Valley during the early Holocene. The genetic evidence identifies the main ancestor of O. sativa was O. rufipogon, however, this now occurs naturally south of the Yangtze where its distribution is limited by summer temperatures and mean annual temperature. The mismatch between occurrence of ancestors and presumed sites of early cultivation leads to a number of hypotheses. These include that first domestication actually took place further south, such as in the Pearl River valley but archeological evidence is currently lacking for this. Or domestication took place, when O. rufipogon had a more extensive natural range in the past. Early to mid-Holocene palaeoclimate reconstructions show that the East Asian Summer Monsoon was more active in the early Holocene and estimates show that the temperature requirements for O. rufipogon were met for a substantial area of northeast China at the time. This would mean that earliest known domestication sites and presumed ancestor distribution coincided for several millennia. Thus early records of rice farming in Henan and Shandong were easily accommodated by early to mid Holocene climates.

The Yangzi River and the Environmental History of South China

Over the last seven thousand years, humans have gradually domesticated the environment of South China. Transitioning from a reliance on wild environments, humans tamed plants and animals and transformed the landscapes and waterscapes to better fit their needs. Rice paddies, orchards, and artificial ponds and forests replaced naturally seeded woodlands and seasonal wetlands. Even the Yangzi River, and many of the other rivers, lakes, and seashores, were transformed by polders, dikes, and seawalls to better support human activities, especially rice agriculture. In the last thousand years, farmers intensified their control of the cultivated landscape through terracing, irrigation, flood prevention, and new crop rotations. They planted commercial crops like cotton, fruits, oilseeds, tea, and sugar cane in growing concentrations. Migrants and merchants spread logging, mining, and intensive agriculture to thinly settled parts of the south and west. Since the 17th century, New World crops like sweet potatoes, chilis, maize, and tobacco enabled a further intensification of land use, especially in the mountains. Since the early 1800s, land clearance and river diking reached extremes and precipitated catastrophic flooding, social unrest, and a century of warfare. Since 1950, the People’s Republic has overseen three further waves of degradation accompanying the mass campaigns of the Mao era and the market reforms under Deng Xiaoping. Following catastrophic flooding in 1998, the government has increasingly worked to reverse these trends. Nonetheless, South China remains one of the most intensively cultivated environments in the world and continues to feel the effects of new attempts to tame and expropriate the forces of nature.

Multiple migrations to the Philippines during the last 50,000 years

Island Southeast Asia has recently produced several surprises regarding human history, but the region’s complex demography remains poorly understood. Here, we report ∼2.3 million genotypes from 1,028 individuals representing 115 indigenous Philippine populations and genome-sequence data from two ∼8,000-y-old individuals from Liangdao in the Taiwan Strait. We show that the Philippine islands were populated by at least five waves of human migration: initially by Northern and Southern Negritos (distantly related to Australian and Papuan groups), followed by Manobo, Sama, Papuan, and Cordilleran-related populations. The ancestors of Cordillerans diverged from indigenous peoples of Taiwan at least ∼8,000 y ago, prior to the arrival of paddy field rice agriculture in the Philippines ∼2,500 y ago, where some of their descendants remain to be the least admixed East Asian groups carrying an ancestry shared by all Austronesian-speaking populations. These observations contradict an exclusive “out-of-Taiwan” model of farming–language–people dispersal within the last four millennia for the Philippines and Island Southeast Asia. Sama-related ethnic groups of southwestern Philippines additionally experienced some minimal South Asian gene flow starting ∼1,000 y ago. Lastly, only a few lowlanders, accounting for <1% of all individuals, presented a low level of West Eurasian admixture, indicating a limited genetic legacy of Spanish colonization in the Philippines. Altogether, our findings reveal a multilayered history of the Philippines, which served as a crucial gateway for the movement of people that ultimately changed the genetic landscape of the Asia-Pacific region.

Identification of Bacterial Blight Resistance Loci in Rice (Oryza sativa L.) against Diverse Xoo Thai Strains by Genome-Wide Association Study

Bacterial leaf blight (BLB) is a serious disease affecting global rice agriculture caused by Xanthomonas oryzae pv. oryzae (Xoo). Most resistant rice lines are dependent on single genes that are vulnerable to resistance breakdown caused by pathogen mutation. Here we describe a genome-wide association study of 222 predominantly Thai rice accessions assayed by phenotypic screening against 20 Xoo isolates. Loci corresponding to BLB resistance were detected using >142,000 SNPs. We identified 147 genes according to employed significance thresholds across chromosomes 1–6, 8, 9 and 11. Moreover, 127 of identified genes are located on chromosomal regions outside estimated Linkage Disequilibrium influences of known resistance genes, potentially indicating novel BLB resistance markers. However, significantly associated SNPs only occurred across a maximum of six Xoo isolates indicating that the development of broad-spectrum Xoo strain varieties may prove challenging. Analyses indicated a range of gene functions likely underpinning BLB resistance. In accordance with previous studies of accession panels focusing on indica varieties, our germplasm displays large numbers of SNPs associated with resistance. Despite encouraging data suggesting that many loci contribute to resistance, our findings corroborate previous inferences that multi-strain resistant varieties may not be easily realised in breeding programs without resorting to multi-locus strategies.